Metrics
0 Downloads
Share Dataset

Share this dataset on your favorite social media networks.

Whole genome sequencing of Cronobacter sakazakii MK_10

Version 1.0

Wyszyńska, Agnieszka; Łasica, Anna; Bartosik, Dariusz, 2026, "Whole genome sequencing of Cronobacter sakazakii MK_10", https://doi.org/10.58132/RTSOAY, Dane Badawcze UW, V1

Learn about Data Citation Standards.

Description

Cronobacter sakazakii MK_10 was isolated from dried oregano and sequenced using a hybrid strategy combining Oxford Nanopore Technologies (ONT) and Illumina platforms. For ONT sequencing, genomic DNA was mechanically fragmented using BD Micro-Fine Plus needles, and libraries were prepared with the Ligation Sequencing Kit and Native Barcoding Kit 96 V14 (SQK-NBD114.96; Oxford Nanopore Technologies). Library quality was evaluated using an Agilent TapeStation 2200 system with Genomic DNA ScreenTape, and sequencing was carried out on a MinION device equipped with an R10.4.1 flow cell.

For Illumina sequencing, DNA was fragmented with a Covaris S220 ultrasonicator, followed by library preparation using the KAPA HyperPrep Kit and TruSeq DNA UD Indexes. Quality control was performed on an Agilent TapeStation 2200 system with High Sensitivity D1000 reagents. Libraries were quantified by qPCR using the KAPA Library Quantification Kit, and fragment size distribution was assessed prior to sequencing. Sequencing was conducted on an Illumina NovaSeq 6000 instrument in paired-end mode using an S1 Reagent Kit v1.5.

Subject
Medicine, Health and Life Sciences
Keyword

Cronobacter sakazakii MK_10, whole genome sequencing, food contamination

Related Publication

Korsak D, Szuplewska M, Kozłowska P, Krakowski K, Chmielowska C, Wawrzyniak P, Maćkiw E and Bartosik D (2025) Characterization of Cronobacter spp. isolated from food products in Poland and comparative genomic analysis of Cronobacter sakazakii isolate MK_10 and a clinical strain associated with a fatal neonatal infection. Front. Microbiol. 16:1713963. doi: 10.3389/fmicb.2025.1713963 https://doi.org/10.3389/fmicb.2025.1713963 doi: 10.3389/fmicb.2025.1713963

CC BY - Creative Commons Attribution 4.0 CC BY - Creative Commons Attribution 4.0

Find
1 to 5 of 5 Files
checklist_illumina.md5
Plain Text - 120 B - Apr 29, 2026 - 0 Downloads
MD5: 4c8e60434a9c8d0212efbe7bfa39d282
License: CC BY - Creative Commons Attribution 4.0
md5 checksums for Illumina paired short reads
Preview
Download
MK_10_S35_R1_001.fastq.gz
Unknown - 199.7 MB - Apr 29, 2026 - 0 Downloads
MD5: 1e4b9d2b8fbb5eecc98dbfd7d4b76bb3
License: CC BY - Creative Commons Attribution 4.0
Illumina R1 reads
Download
MK_10_S35_R2_001.fastq.gz
Unknown - 214.4 MB - Apr 29, 2026 - 0 Downloads
MD5: 6c7ed0aed2336f9fb3f532ea04792ff7
License: CC BY - Creative Commons Attribution 4.0
Illumina R2 reads
Download
checklist_nanopore.md5
Plain Text - 49 B - Apr 29, 2026 - 0 Downloads
MD5: 3f986d18e11cdc05721a811c092c8ec6
License: CC BY - Creative Commons Attribution 4.0
md5 checksum for ONT reads
Preview
Download
MK_10.fastq.gz
Unknown - 126.9 MB - Apr 29, 2026 - 0 Downloads
MD5: f37082edf9c35cfa0dfb75bdf6b317cd
License: CC BY - Creative Commons Attribution 4.0
ONT long reads
Download
Select File(s)

Please select a file or files to be deleted.

Delete Files

The file(s) will be deleted after you click on the Delete button.

Files will not be removed from previously published versions of the dataset.

Select File(s)

Please select a file or files to be edited.

Select File(s)

Please select a file or files to be edited.

Select File(s)

Please select a file or files to be edited.

Edit license

For selected file(s) set a license to

Select File(s)

Please select a file or files to be downloaded.

Select File(s)

Please select a file or files for access request.

Select File(s)

Please select restricted file(s) to be unrestricted.

Request Access

  You need to Log In/Sign Up to request access to this file.

Continue
Dataset Terms

Please confirm and/or complete the information needed below in order to continue.

Asterisks indicate required fields

Request Access

Access to file(s) subject to additional consent under following conditions:

Accept
Package File Download
Restricted Files Selected

The restricted file(s) selected may not be downloaded because you have not been granted access.

Restricted Files Selected

The restricted file(s) selected may not be downloaded because you have not been granted access.

Click Continue to download the files you have access to download.

Delete Dataset

Are you sure you want to delete this dataset and all of its files? You cannot undelete this dataset.

Embargo

Embargo

Are you sure you want to lift the embargo?

Once you lift the embargo, you will not be able to set it again.

Delete Draft Version

Are you sure you want to delete this draft version? Files will be reverted to the most recently published version. You cannot undelete this draft.

Dataset Anonymized Private URL

Use a Anonymized Private URL to allow those without Dataverse accounts to access your dataset. For more information about the Private URL feature, please refer to the User Guide.

Private URL has not been created.

"WARNING. This dataset has at least one published version. Those who have access to the Anonymized Private URL for this dataset may be able to use its accessible metadata to look up the full, not anonymized version of this dataset.

Dataset Anonymized Private URL

Are you sure you want to disable the Private URL? If you have shared the Private URL with others they will no longer be able to use it to access your dataset.

Dataset Private URL

Use a Private URL to allow those without Dataverse accounts to access your dataset. For more information about the Private URL feature, please refer to the User Guide.

Private URL has not been created.

Dataset Private URL

Are you sure you want to disable the Private URL? If you have shared the Private URL with others they will no longer be able to use it to access your dataset.

Submit for Review

You will not be able to make changes to this dataset while it is in review.

Submit
Publish Dataset

This dataset cannot be published until Wydział Biologii is published. Would you like to publish both right now?

Once you publish this dataset it must remain published.

Publish Dataset

Are you sure you want to republish this dataset?

Select if this is a minor or major version update.

Publish Dataset

This dataset cannot be published until Wydział Biologii is published by its administrator.

Publish Dataset

This dataset cannot be published until Wydział Biologii and Dane Badawcze UW are published.

Return for modification


Send a copy of this message to the return e-mail address.
OK
Deaccession Dataset

Are you sure you want to deaccession? The selected version(s) will no longer be viewable by the public.