Draft Whole-Genome Sequence of  Triparma laevis  f.  inornata  (Parmales, Bolidophyceae), Isolated from the Oyashio Region, Western North Pacific Ocean

There is no author summary for this article yet. Authors can add summaries to their articles on ScienceOpen to make them more accessible to a non-specialist audience.

Abstract

We present the first draft whole-genome sequence for the Parmales (Bolidophyceae, Heterokonta), a picoplanktonic sister group of diatoms, using a Triparma laevis f. inornata strain that was isolated from the Oyashio region in the western North Pacific Ocean.

ABSTRACT

Related collections

Most cited references 5

Record: found
Abstract: found
Article: found

Is Open Access

Toward almost closed genomes with GapFiller

Marten Boetzer, Walter Pirovano (2012)

De novo assembly is a commonly used application of next-generation sequencing experiments. The ultimate goal is to puzzle millions of reads into one complete genome, although draft assemblies usually result in a number of gapped scaffold sequences. In this paper we propose an automated strategy, called GapFiller, to reliably close gaps within scaffolds using paired reads. The method shows good results on both bacterial and eukaryotic datasets, allowing only few errors. As a consequence, the amount of additional wetlab work needed to close a genome is drastically reduced. The software is available at http://www.baseclear.com/bioinformatics-tools/.

0 comments Cited 653 times – based on 0 reviews      Review now

Bookmark

Record: found
Abstract: not found
Article: not found

Visualizing data using ti-SNE

LH Van der Maaten, G Hinton, L van der Maaten … (2008)

0 comments Cited 258 times – based on 0 reviews      Review now

Bookmark

Record: found
Abstract: not found
Article: not found

Sequencing and analysis of the complete organellar genomes of Parmales, a closely related group to Bacillariophyta (diatoms)

Naoyuki Tajima, Kenji Saitoh, Shusei Sato … (2016)

0 comments Cited 16 times – based on 0 reviews      Review now

Bookmark

All references

Author and article information

Contributors

Jason E. Stajich: Role: Editor

Journal

Journal ID (nlm-ta): Microbiol Resour Announc

Journal ID (iso-abbrev): Microbiol Resour Announc

Journal ID (hwp): ga

Journal ID (pmc): mra

Journal ID (publisher-id): MRA

Title: Microbiology Resource Announcements

Publisher: American Society for Microbiology (1752 N St., N.W., Washington, DC )

ISSN (Electronic): 2576-098X

Publication date (Electronic): 13 August 2020

Publication date Collection: August 2020

Volume: 9

Issue: 33

Electronic Location Identifier: e00367-20

Affiliations

[a ]Tohoku National Fisheries Research Institute, Fisheries Research and Education Agency, Shiogama, Miyagi, Japan

[b ]National Research Institute of Fisheries Science, Fisheries Research and Education Agency, Yokohama, Kanagawa, Japan

[c ]Prefectural University of Kumamoto, Kumamoto, Kumamoto, Japan

[d ]University of Tokyo, Tokyo, Japan

University of California, Riverside

Author notes

Address correspondence to Akira Kuwata, akuwata@ 123456affrc.go.jp .

Author order was determined on the basis of affiliation and seniority.

Citation Kuwata A, Saitoh K, Nakamura Y, Ichinomiya M, Sato N. 2020. Draft whole-genome sequence of Triparma laevis f. inornata (Parmales, Bolidophyceae), isolated from the Oyashio region, western North Pacific Ocean. Microbiol Resour Announc 9:e00367-20. https://doi.org/10.1128/MRA.00367-20.

Author information

Akira Kuwata https://orcid.org/0000-0002-7359-7421

Naoki Sato https://orcid.org/0000-0001-6230-0410

Article

Publisher ID: MRA00367-20

DOI: 10.1128/MRA.00367-20

PMC ID: 7427184

PubMed ID: 32817146

SO-VID: 695377a5-d9e9-43c4-9e76-7c2f2b22f952

License:

This is an open-access article distributed under the terms of the Creative Commons Attribution 4.0 International license.

History

Date received : 17 April 2020

Date accepted : 14 July 2020

Page count

Figures: 0, Tables: 0, Equations: 0, References: 11, Pages: 2, Words: 1416

Funding

Funded by: The Canon Foundation (Japan);

Award Recipient : Akira Kuwata

Funded by: MEXT | Japan Society for the Promotion of Science (JSPS), https://doi.org/10.13039/501100001691;

Award ID: 22657027

Award ID: 23370046

Award ID: 26291085

Award ID: 17H03724

Award Recipient : Akira Kuwata

Custom metadata

cover-date August 2020

Data availability:

Draft Whole-Genome Sequence of Triparma laevis f. inornata (Parmales, Bolidophyceae), Isolated from the Oyashio Region, Western North Pacific Ocean

Read this article at

Abstract

ABSTRACT

Related collections

Genome Engineering using CRISPR

Most cited references 5

Toward almost closed genomes with GapFiller

Visualizing data using ti-SNE

Sequencing and analysis of the complete organellar genomes of Parmales, a closely related group to Bacillariophyta (diatoms)

Author and article information

Contributors

Journal

Affiliations

Author notes

Author information

Article

History

Page count

Funding

Categories

Custom metadata

Comments

Comment on this article

Cited by 2

Most referenced authors 308