Show simple item record

dc.contributor.authorMineta, Katsuhiko
dc.contributor.authorGojobori, Takashi
dc.date.accessioned2015-11-05T06:24:18Z
dc.date.available2015-11-05T06:24:18Z
dc.date.issued2015-11-02
dc.identifier.citationDatabases of the marine metagenomics 2015 Gene
dc.identifier.issn03781119
dc.identifier.pmid26518717
dc.identifier.doi10.1016/j.gene.2015.10.035
dc.identifier.urihttp://hdl.handle.net/10754/581767
dc.description.abstractThe metagenomic data obtained from marine environments is significantly useful for understanding marine microbial communities. In comparison with the conventional amplicon-based approach of metagenomics, the recent shotgun sequencing-based approach has become a powerful tool that provides an efficient way of grasping a diversity of the entire microbial community at a sampling point in the sea. However, this approach accelerates accumulation of the metagenome data as well as increase of data complexity. Moreover, when metagenomic approach is used for monitoring a time change of marine environments at multiple locations of the seawater, accumulation of metagenomics data will become tremendous with an enormous speed. Because this kind of situation has started becoming of reality at many marine research institutions and stations all over the world, it looks obvious that the data management and analysis will be confronted by the so-called Big Data issues such as how the database can be constructed in an efficient way and how useful knowledge should be extracted from a vast amount of the data. In this review, we summarize the outline of all the major databases of marine metagenome that are currently publically available, noting that database exclusively on marine metagenome is none but the number of metagenome databases including marine metagenome data are six, unexpectedly still small. We also extend our explanation to the databases, as reference database we call, that will be useful for constructing a marine metagenome database as well as complementing important information with the database. Then, we would point out a number of challenges to be conquered in constructing the marine metagenome database.
dc.language.isoen
dc.publisherElsevier BV
dc.relation.urlhttp://linkinghub.elsevier.com/retrieve/pii/S0378111915012433
dc.rightsNOTICE: this is the author’s version of a work that was accepted for publication in Gene. Changes resulting from the publishing process, such as peer review, editing, corrections, structural formatting, and other quality control mechanisms may not be reflected in this document. Changes may have been made to this work since it was submitted for publication. A definitive version was subsequently published in Gene, 28 October 2015. DOI: 10.1016/j.gene.2015.10.035
dc.subjectMetagenomics
dc.subjectDatabase
dc.subjectBioinformatics
dc.subjectBiodiversity
dc.subjectComparative metagenomics
dc.subjectMarine science
dc.subjectMicrobe
dc.subjectEnvironment
dc.titleDatabases of the marine metagenomics
dc.typeArticle
dc.contributor.departmentBiological and Environmental Sciences and Engineering (BESE) Division
dc.contributor.departmentBioscience Program
dc.contributor.departmentComputational Bioscience Research Center (CBRC)
dc.identifier.journalGene
dc.eprint.versionPost-print
dc.contributor.affiliationKing Abdullah University of Science and Technology (KAUST)
kaust.personMineta, Katsuhiko
kaust.personGojobori, Takashi
refterms.dateFOA2016-10-28T00:00:00Z
dc.date.published-online2015-11-02
dc.date.published-print2016-02


Files in this item

Thumbnail
Name:
1-s2.0-S0378111915012433-main.pdf
Size:
267.4Kb
Format:
PDF
Description:
Accepted Manuscript

This item appears in the following Collection(s)

Show simple item record