Brassica genome sequencing
Overview
The MBGP selected the 'A' genome Brassica rapa line Chiifu-401 was the first species to be sequenced. The mutlinational BrGSP made significant progress with this based on a conventional BAC-end, anchor-BACs and chromosome-specific BAC by BAC sequencing to Phase II. The strategy has been modified with the availability of high throughput sequencing (primarily 454 and Illumina), and so a project initiated by CAAS/BGI in China has incorporated the existing data into a shotgun approach (see PAG abstract).- Overview of BrGSP
- Detailed status and MBrGSP BAC registry
- BrGSP update, Saskatoon, Aug 2009
- Additional Brassica genome information, browsers, etc.
- For information: Fort Lauderdale report on data sharing from large-scale biological research projects

Ongoing sequencing projects
A number of projects are now ongoing, to generate 'reference' genome sequences, as well as other 're-sequencing' efforts. These are summarised below. Please let us know if and when this information may be updated.Species |
Genotype |
Crop type |
Aims |
Strategy |
Consortium |
Contact |
Data Availability |
Target Completion Date |
notes |
|---|---|---|---|---|---|---|---|---|---|
| B. oleracea | TO1000 | Rapid cycler | ref. 'C' | Illumina +454 | Canada +USA +France + UK | Isobel Parkin | - |
- |
|
| B. oleracea | O212 | Cabbage | ref. 'C' | Illumina +454 | CAAS, Wuhan, China | Shengyi Liu | - |
- |
|
| B. oleracea | ? | Broccoli | re-seq. x5 | Illumina | CAAS, Wuhan, China | Shengyi Liu | - |
- |
76bp (3kb inserts) = 1.16Gbp |
| B. oleracea | Early Big | Broccoli | re-seq | Illumina | USA | Dick McCombie | - |
- |
|
| B. oleracea | re-seq | Illumina | ACPFG, Australia | TAGdb | - |
||||
| B. napus | Tapidor DH | Winter oilseed | ref. 'AC' | Illumina +454 | HAU, China + UK | Jinling Meng | - |
- |
|
| B. napus | Ningyou7 | Spring oilseed | ref. 'AC' | Illumina +454 | HAU, China + UK | Jinling Meng | - |
- |
|
| B. napus | DH12075 | Spring oilseed | ref. 'AC' | Illumina +454 | Can-Seq | Isobel Parkin | - |
- |
|
| B. napus | Darmor DH | Winter oilseed | ref. 'AC' | Illumina, 454, Sanger | INRA, France | Boulos Chaloub | - |
- |
|
| B. napus | Zhongshuang 11 | Spring oilseed | ref. 'AC' | Illumina +454 | CAAS, Wuhan, China | Shengyi Liu | - |
- |
|
| B. nigra | ? | ? | re-seq | Illumina | ACPFG, Australia | TAGdb | - |
76bp (2.7kb inserts) = 1.11Gbp | |
| B. rapa | Chiifu-401 | Chinese cabbage | ref. 'A' | BAC-ends, BACs | BrGSP | Ian Bancroft | see BrGSP status page | ? | incorporated in shotgun approach 2009 |
| B. rapa | Chiifu-401 | Chinese cabbage | ref. 'A' | Illumina +454 | CAAS-BGI | Xiaowu Wang | - |
?July 2010? | |
| B. rapa | Chiifu-401 | Chinese cabbage | ref. 'A' | 5x 454 | INRA, France | Boulos Chaloub | - |
?July 2010? | contribute to CAAS-BGI assembly |
| B. rapa | Chiifu-401 | Chinese cabbage | re-seq | Illumina | ACPFG, Australia | TAGdb | - |
35bp (2.8kb inserts) = 0.88Gbp; 36bp (140bp inserts) = 3.18Gbp; 36pb (300bp inserts) = 0.74Gbp |
|
| B. rapa | Kenshin-402 | Chinese cabbage | re-seq | Illumina | ACPFG, Australia | TAGdb | - |
36bp (410bp inserts) = 0.30Gbp 76bp (410bp inserts) = 0.43Gbp | |
| B. rapa | R-o-18 | Yellow sarson | re-seq. x12 | Illumina | Rothamsted | Graham King | freely available BrassEnsembl | March 2010 | accessible via Blast on BrassEnsembl; shortly by ftp and SRA 76bp (300bp inserts) = 2.8Gbp |



