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Chromosome-scale genome sequencing, assembly and annotation of six genomes from subfamily Leishmaniinae

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Chromosome-scale genome sequencing, assembly and annotation of six genomes from subfamily Leishmaniinae. / Almutairi, Hatim; Urbaniak, Michael D; Bates, Michelle D; Jariyapan, Narissara; Kwakye-Nuako, Godwin; Thomaz Soccol, Vanete; Al-Salem, Waleed S; Dillon, Rod J; Bates, Paul A; Gatherer, Derek.

In: Scientific Data, Vol. 8, No. 1, 234, 06.09.2021.

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@article{31354a18afff4450bd242eff4cf6059f,
title = "Chromosome-scale genome sequencing, assembly and annotation of six genomes from subfamily Leishmaniinae",
abstract = "We provide the raw and processed data produced during the genome sequencing of isolates from six species of parasites from the sub-family Leishmaniinae: Leishmania martiniquensis (Thailand), Leishmania orientalis (Thailand), Leishmania enriettii (Brazil), Leishmania sp. Ghana, Leishmania sp. Namibia and Porcisia hertigi (Panama). De novo assembly was performed using Nanopore long reads to construct chromosome backbone scaffolds. We then corrected erroneous base calling by mapping short Illumina paired-end reads onto the initial assembly. Data has been deposited at NCBI as follows: raw sequencing output in the Sequence Read Archive, finished genomes in GenBank, and ancillary data in BioSample and BioProject. Derived data such as quality scoring, SAM files, genome annotations and repeat sequence lists have been deposited in Lancaster University's electronic data archive with DOIs provided for each item. Our coding workflow has been deposited in GitHub and Zenodo repositories. This data constitutes a resource for the comparative genomics of parasites and for further applications in general and clinical parasitology.",
keywords = "Leishmaniinae, Leishmania, Porcisia, genome sequencing, genome assembly, genome annotation, Parasitology, kinetoplastid, Trypanosomatidae",
author = "Hatim Almutairi and Urbaniak, {Michael D} and Bates, {Michelle D} and Narissara Jariyapan and Godwin Kwakye-Nuako and {Thomaz Soccol}, Vanete and Al-Salem, {Waleed S} and Dillon, {Rod J} and Bates, {Paul A} and Derek Gatherer",
note = "{\textcopyright} 2021. The Author(s).",
year = "2021",
month = sep,
day = "6",
doi = "10.1038/s41597-021-01017-3",
language = "English",
volume = "8",
journal = "Scientific Data",
issn = "2052-4463",
publisher = "Nature Publishing Group",
number = "1",

}

RIS

TY - JOUR

T1 - Chromosome-scale genome sequencing, assembly and annotation of six genomes from subfamily Leishmaniinae

AU - Almutairi, Hatim

AU - Urbaniak, Michael D

AU - Bates, Michelle D

AU - Jariyapan, Narissara

AU - Kwakye-Nuako, Godwin

AU - Thomaz Soccol, Vanete

AU - Al-Salem, Waleed S

AU - Dillon, Rod J

AU - Bates, Paul A

AU - Gatherer, Derek

N1 - © 2021. The Author(s).

PY - 2021/9/6

Y1 - 2021/9/6

N2 - We provide the raw and processed data produced during the genome sequencing of isolates from six species of parasites from the sub-family Leishmaniinae: Leishmania martiniquensis (Thailand), Leishmania orientalis (Thailand), Leishmania enriettii (Brazil), Leishmania sp. Ghana, Leishmania sp. Namibia and Porcisia hertigi (Panama). De novo assembly was performed using Nanopore long reads to construct chromosome backbone scaffolds. We then corrected erroneous base calling by mapping short Illumina paired-end reads onto the initial assembly. Data has been deposited at NCBI as follows: raw sequencing output in the Sequence Read Archive, finished genomes in GenBank, and ancillary data in BioSample and BioProject. Derived data such as quality scoring, SAM files, genome annotations and repeat sequence lists have been deposited in Lancaster University's electronic data archive with DOIs provided for each item. Our coding workflow has been deposited in GitHub and Zenodo repositories. This data constitutes a resource for the comparative genomics of parasites and for further applications in general and clinical parasitology.

AB - We provide the raw and processed data produced during the genome sequencing of isolates from six species of parasites from the sub-family Leishmaniinae: Leishmania martiniquensis (Thailand), Leishmania orientalis (Thailand), Leishmania enriettii (Brazil), Leishmania sp. Ghana, Leishmania sp. Namibia and Porcisia hertigi (Panama). De novo assembly was performed using Nanopore long reads to construct chromosome backbone scaffolds. We then corrected erroneous base calling by mapping short Illumina paired-end reads onto the initial assembly. Data has been deposited at NCBI as follows: raw sequencing output in the Sequence Read Archive, finished genomes in GenBank, and ancillary data in BioSample and BioProject. Derived data such as quality scoring, SAM files, genome annotations and repeat sequence lists have been deposited in Lancaster University's electronic data archive with DOIs provided for each item. Our coding workflow has been deposited in GitHub and Zenodo repositories. This data constitutes a resource for the comparative genomics of parasites and for further applications in general and clinical parasitology.

KW - Leishmaniinae

KW - Leishmania

KW - Porcisia

KW - genome sequencing

KW - genome assembly

KW - genome annotation

KW - Parasitology

KW - kinetoplastid

KW - Trypanosomatidae

U2 - 10.1038/s41597-021-01017-3

DO - 10.1038/s41597-021-01017-3

M3 - Journal article

C2 - 34489462

VL - 8

JO - Scientific Data

JF - Scientific Data

SN - 2052-4463

IS - 1

M1 - 234

ER -