PCI Genomics

368

Title *

LukProt: A database of eukaryotic predicted proteins designed for investigations of animal originsuse asterix (*) to get italics

Authors *

Łukasz F. SobalaPlease use the format "First name initials family name" as in "Marie S. Curie, Niels H. D. Bohr, Albert Einstein, John R. R. Tolkien, Donna T. Strickland"

Year *

2024

Picture *

Abstract *

<p>The origins and early evolution of animals is a subject with many outstanding questions. One problem faced by researchers trying to answer them is the absence of a comprehensive database of sequences from non-bilaterians. Publicly available data is plentiful but scattered and often not associated with proper metadata. A new database presented in this paper, LukProt, is an attempt at solving this issue. The database contains protein sequences obtained mostly from genomic, transcriptomic and metagenomic studies and is an extension of EukProt (a collection of eukaryotic sequences from all known clades). LukProt adopts and extends EukProt naming conventions and includes data from 216 additional animals. The database is associated with a taxogroup scheme suitable for studying early animal evolution. Minor updates to the database will contain species additions or metadata corrections and major updates will synchronize LukProt to each new version of EukProt. All public LukProt releases are permanently stored on Zenodo. A BLAST server to search the database is available at <a href="https://lukprot.hirszfeld.pl/">https://lukprot.hirszfeld.pl/</a>. The community is invited to participate in maintaining and correcting LukProt. As it can be searched without downloading locally, the database can be a convenient resource not only for evolutionary biologists, but the broader scientific community as well.</p>

Indicate the full web address (DOI or URL) giving public access to these data (if you have any problems with the deposit of your data, please contact contact@genomics.peercommunityin.org). In case all raw data are included in the preprint, indicate the DOI or URL of the preprint. *

https://zenodo.org/doi/10.5281/zenodo.7089120, https://zenodo.org/doi/10.5281/zenodo.10580774You should fill this box only if you chose 'All or part of the results presented in this preprint are based on data'. URL must start with http:// or https://

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https://zenodo.org/doi/10.5281/zenodo.10580774You should fill this box only if you chose 'Scripts were used to obtain or analyze the results'. URL must start with http:// or https://

Indicate the full web address (DOI, SWHID or URL) giving public access to these codes (if you have any problems with the deposit of your codes, please contact contact@genomics.peercommunityin.org). In case all raw codes are included in the preprint, indicate the DOI or URL of the preprint. *

https://zenodo.org/doi/10.5281/zenodo.10654583You should fill this box only if you chose 'Codes have been used in this study'. URL must start with http:// or https://

Keywords (optional)

EukProt, LukProt, database, evolution, animals, Metazoa, eukaryote, proteome, dataset

Methods that require specific expertise (optional)

NonePlease indicate the methods that may require specialised expertise during the peer review process (use a comma to separate various required expertises).

Thematic fields *

Bioinformatics, Evolutionary genomics, Marine invertebrates

Suggested reviewers - Suggest up to 10 reviewers (provide names and Email addresses). (Optional)

No need for them to be recommenders of PCI Genomics. Please do not suggest reviewers for whom there might be a conflict of interest. Reviewers are not allowed to review preprints written by close colleagues (with whom they have published in the last four years, with whom they have received joint funding in the last four years, or with whom they are currently writing a manuscript, or submitting a grant proposal), or by family members, friends, or anyone for whom bias might affect the nature of the review - see the code of conduct

Opposed reviewers - Suggest up to 5 people not to invite as reviewers. (Optional)

Inaki Ruiz-Trillo (inaki.ruiz@ibe.upf-csic.es), Pawel Burkhardt (pawel.burkhardt@uib.no)e.g. John Doe [john@doe.com]

Submission date

2024-02-02 13:04:31

Recommender

Javier del Campo

Reviewers

Anonymous, Giacomo Mutti , Anonymous

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