Toward richer metadata for microbial sequences: replacing strain-level NCBI taxonomy taxids with BioProject, BioSample and Assembly records

被引：31

作者：

Federhen, Scott ^{[1
]}

Clark, Karen ^{[1
]}

Barrett, Tanya ^{[1
]}

Parkinson, Helen ^{[2
]}

Ostell, James ^{[1
]}

Kodama, Yuichi ^{[3
]}

Mashima, Jun ^{[3
]}

Nakamura, Yasukazu ^{[3
]}

Cochrane, Guy ^{[2
]}

Karsch-Mizrachi, Ilene ^{[1
]}

机构：

[1] NIH, Natl Ctr Biotechnol Informat, Natl Lib Med, Bethesda, MD 20892 USA

[2] European Bioinformat Inst, European Mol Biol Lab, Hinxton, England

[3] Res Org Informat & Syst, Natl Inst Genet, DDBJ Ctr, Mishima, Shizuoka 4118540, Japan

来源：

STANDARDS IN GENOMIC SCIENCES | 2014年 / 9卷 / 03期

关键词：

DATABASE; GENOMICS; ARCHIVE; UPDATE;

D O I：

10.4056/sigs.4851102

中图分类号：

Q3 [遗传学];

学科分类号：

071007 ; 090102 ;

摘要：

Microbial genome sequence submissions to the International Nucleotide Sequence Database Collaboration (INSDC) have been annotated with organism names that include the strain identifier. Each of these strain-level names has been assigned a unique 'taxid' in the NCBI Taxonomy Database. With the significant growth in genome sequencing, it is not possible to continue with the curation of strain-level taxids. In January 2014, NCBI will cease assigning strain-level taxids. Instead, submitters are encouraged provide strain information and rich metadata with their submission to the sequence database, BioProject and BioSample. Copyright (C) retained by original authors

引用

页码：1275 / 1277

页数：5

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