Open Access Highly Accessed Research article

Identification of candidate genes of QTLs for seed weight in Brassica napus through comparative mapping among Arabidopsis and Brassica species

Guangqin Cai12, Qingyong Yang1, Qian Yang1, Zhenxing Zhao12, Hao Chen1, Jian Wu1, Chuchuan Fan1 and Yongming Zhou12*

Author Affiliations

1 National Key Laboratory of Crop Genetic Improvement, Huazhong Agricultural University, Wuhan, 430070, China

2 Key Laboratory of Rapeseed Genetics and Breeding of Agriculture Ministry of China, Huazhong Agricultural University, Wuhan, 430070, China

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BMC Genetics 2012, 13:105  doi:10.1186/1471-2156-13-105

Published: 6 December 2012

Additional files

Additional file 1 Table S1:

Genetic linkage groups of B. napus, SSR marker primer sequences, amplification copy numbers, amplicon position in B. rapa/B. oleracea and homologous colinear locus in Arabidopsis.

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Additional file 2:

The Perl script of e-PCRmap computer program.

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Additional file 3 Figure S1:

Comparative map of B. napus with A. thaliana (LGs A1, A2, C1 and C2). Column a presents the genetic linkage groups (LGs) of the SJ DH population. LGs are represented by vertical bars with the loci position (in cM) indicated on the left and SSR loci names on the right. Column b and c list the homologous colinear loci in B. rapa and B. oleracea, respectively. The number means the physical position in B. rapa or B. oleracea chromosome with the length of amplification fragment. Column d and e are Arabidopsis gene codes corresponding to the homologous loci. Column f is the Arabidopsis conserved blocks identified in B. napus, which is nomenclatured according to Schranz et al.[5] and colored differently based on the A. thaliana (At) chromosome positions defined by Parkin et al.[30]. Inversions in the linkage groups relative to Arabidopsis are indicated by arrows. Column g lists the homologous genes of seed size or weight in B. rapa and B. oleracea. Genes with asterisk indicate that they are in good fit into both Arabidopsis and B. rapa/B. oleracea physical positions, and genes with brackets are the tandem repeats (TR) of homologous genes with the tandem repeat times in brackets.

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Additional file 4 Figure S2:

Comparative map of B. napus with A. thaliana (LGs A3, A4 C3 and C4).

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Additional file 5 Figure S3:

Comparative map of B. napus with A. thaliana (LGs A5-A7 and C5-C7).

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Additional file 6 Figure S4:

Comparative map of B. napus with A. thaliana (LGs A8-A10, C8 and C9). (TIFF 1406 kb)

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Additional file 7 Table S2:

QTLs for TSW in the SJ DH population detected previously and re-scanned in the present study.

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Additional file 8 Table S3:

Distribution of conserved Arabidopsis genomic blocks in B. napus genome.

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Additional file 9 Table S4:

Homologous genes of seed size/weight in B. rapa and B. oleracea chromosomes and scaffolds.

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Additional file 10 Figure S5:

Comparative analysis of AP2 genomic sequences of SW Hickory and JA177 with Arabidopsis.

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Additional file 11 Figure S6:

A flow diagram for construction of a comparative map between B. napus with Arabidopsis based on the B. rapa and B. oleracea genome sequences, and for prediction of candidate genes for QTLs mapped on the map.

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