A. thaliana Col-0 v12 reannotation effort

Owned by Tanya Berardini
Last updated: Oct 30, 2024
1 min read

This site aims to collate information about the A. thaliana Col-0 v.12 reannotation effort. The broad project plan and timeline are shown below. Additional pages linked on the left cover online meeting minutes, in person meeting presentations, and other project updates.

LATEST UPDATES

Questions? Please email curator@arabidopsis.org.


Project goal: To produce an improved structural annotation of the A. thaliana Col-0 genome based on a 2022 community consensus genome assembly

Project phases:


Timeline: Roughly 14 months, starting Nov. 2022

Dec2022Jan2023FebMarAprMayJunJulAugSepOctNovDecJan2024Update @ PAG30 in Sa…Update ICAR (Chiba, Japan)Update ASPB (Georgia, USA)Update @ PAG31 in Sa…UpdateUpdate: V12 live in RefSeqUpdateUpdateUpdateUpdateUpdate
Genome Assembly
Automated Annotation
Manual Review
NCBI/RefSeq Submission
Dissemination/Integration

Schneeberger group to submit to NCBI

Schneeberger group to complete CC assembly

NCBI to run annotation pipeline

NCBI to provide gene lists for review

NCBI to review Col-CC and approve

TAIR to set up Apollo

TAIR to set up review training

Community to conduct manual review

TAIR to test NCBI submission with dummy data

TAIR to submit final annotation to GenBank

TAIR to run QC checks on final annotation

Write manuscript about community effort

Poster and/or talk at conference

Poster and/or talk at conference

TAIR to prepare update

Participants: 

  • globally distributed scientists (UK, Germany, China, Canada, US, so far)
  • varying areas of expertise relevant to different phases of the project, not all participants are involved in all phases
  • TAIR will provide coordination/project management and hosting of the software for manual review

Link to All Meeting notes