Navigation Links
Plant Physiology and TAIR partnership will provide genetic information to public database
Date:3/13/2008

A unique partnership has been formed between Plant Physiology and The Arabidopsis Information Resource (TAIR) to create an efficient mechanism that will ensure that genetic and molecular data on Arabidopsis published in the Journal are reliably captured in TAIRs public database. This collaborationthe first of its kind-- provides authors with the ability to submit manuscripts to the Journal for publication and gene information to the TAIR database at the same time.

Plant Physiology (http://www.plantphysiol.org/) is an international plant science journal established in 1926. It publishes articles on broad aspects of plant biology including physiology, biochemistry, cellular and molecular biology, genetics, biophysics, and environmental biology of plants. Although Plant Physiology publishes papers on a wide range of plants, it publishes a very high number of papers that describe the use of the model organism Arabidopsis thaliana to decipher how plants function. These Arabidopsis articles are the foundation of the connection with TAIR.

TAIR (http://www.arabidopsis.org/) was created in 1999. Its mission is to collect information and maintain a database of genetic and molecular biology data for Arabidopsis thaliana, a widely used model plant. Since its inception, TAIR has grown and now includes the complete genome sequence along with gene structure, gene product information, metabolism, gene expression, DNA and seed stocks, genome maps, genetic and physical markers, and publications, as well as information about the Arabidopsis research community. For some time now, TAIR has been curating data from the published literature, adding new or additional information relating to Arabidopsis genetics and molecular biology data to the database. Curation is a labor-intensive process that makes certain that the information included in the database is of high quality and as accurate as possible. TAIRs goal is to achieve the widest possible coverage of annotations of the genome. However, due to the high number of Arabidopsis-related publications and the relatively small number of TAIR curators, keeping on top of the current literature is difficult. In part, because of the high volume of Arabidopsis papers that Plant Physiology publishes, in 20062007 only about 25% (50/200) of the Arabidopsis papers in the Journal were captured in TAIR.

In May 2007 Sue Rhee, Principal Investigator; Eva Huala, Director of TAIR; and Plant Physiology Editor-in-Chief Don Ort conceived the idea of Plant Physiology partnering with TAIR to increase the curation of Arabidopsis gene function data from the Journal to as close to 100% as possible. The concept behind this is simple: once a manuscript has been accepted, the author submits all the relevant gene information to Plant Physiology, which will then submit the information in bulk to TAIR for vetting and addition to the database. A link to a web-based interface will be included in the manuscript provisional acceptance letter; this is anticipated to make it even easier for authors to submit their Arabidopsis gene function data to TAIR.

All parties benefit from this interaction. Since TAIR shares its information with larger databases such as the National Center for Biotechnology Information (NCBI) and the Gene Ontology (GO), both Plant Physiology and its authors gain greater visibility in the research community by having their data available from all these resources. TAIR gains by sharing the load of capturing all this valuable data with the authors themselves. The biggest beneficiary of this partnership is the entire plant science community through access to increased gene annotation information. Both TAIR and Plant Physiology are enthusiastic about this project and think it will be a successful partnership that other biological databases and journals can emulate to increase the flow of information and data dissemination within the research community.


'/>"/>

Contact: Tanya Berardini
tberardini@arabidopsis.org
650-325-1521
American Society of Plant Biologists
Source:Eurekalert

Related biology news :

1. A common genetic mechanism discovered in nitrogen-fixing plants
2. Mechanisms of plant-fungi symbiosis characterized by DOE Joint Genome Institute
3. Scientists uncover a novel mechanism that regulates carbon dioxide fixation in plants
4. Will global warming increase plant frost damage?
5. Breakthrough in plant research
6. Gene that controls ozone resistance of plants could lead to drought-resistant crops
7. Purging the plantain pests in Africa
8. Nitrogen pollution boosts plant growth in tropics by 20 percent
9. DNA barcode identified for plants
10. Plant reflections may be key to early detection of treatment needs
11. Cold Spring Harbor Laboratory to play central role addressing key questions in plant biology
Post Your Comments:
*Name:
*Comment:
*Email:
(Date:4/5/2017)... , April 5, 2017  The Allen Institute for ... Cell Explorer: a one-of-a-kind portal and dynamic digital window ... imaging data, the first application of deep learning to ... stem cell lines and a growing suite of powerful ... for these and future publicly available resources created and ...
(Date:3/30/2017)... ANGELES , March 30, 2017  On April ... Hack the Genome hackathon at Microsoft,s ... exciting two-day competition will focus on developing health and ... Hack the Genome is the ... been tremendous. The world,s largest companies in the genomics, ...
(Date:3/27/2017)... 27, 2017  Catholic Health Services (CHS) has ... Society (HIMSS) Analytics for achieving Stage 6 on ... . In addition, CHS previously earned a place ... an electronic medical record (EMR). "HIMSS ... of EMR usage in an outpatient setting.  This ...
Breaking Biology News(10 mins):
(Date:8/15/2017)... ... 2017 , ... Kapstone Medical is proud to announce that it ... companies and inventors develop and safeguard their latest innovations. The company has grown ... portfolio of clients in the United States and around the world. , Company ...
(Date:8/15/2017)... ... 2017 , ... Kenall, a leader in sealed solid-state lighting, ... sealed and perform efficiently for years. The downlights are ideal for a variety ... such as: hospitals; behavioral health facilities; cleanrooms; containment areas; food and pharmaceutical processing ...
(Date:8/14/2017)... ... August 14, 2017 , ... Every year, millions of ... the antibody community have recently come together to address this antibody crisis and ... , The team at Thermo Fisher Scientific has arranged ...
(Date:8/11/2017)... ... August 11, 2017 , ... A staple in the community for more ... incorporate important key elements including a new digital marketing strategy and updated logo. , ... Bill Miller has partnered with the South Texas Blood & Tissue Center for the ...
Breaking Biology Technology: