The DOI matches its Crossref record; 62 of the 62 references it cites were found in a registry or an index.
The Brassica oleracea genome reveals the asymmetrical evolution of polyploid genomes
Open accessAbstract
Polyploidization has provided much genetic variation for plant adaptive evolution, but the mechanisms by which the molecular evolution of polyploid genomes establishes genetic architecture underlying species differentiation are unclear. Brassica is an ideal model to increase knowledge of polyploid evolution. Here we describe a draft genome sequence of Brassica oleracea, comparing it with that of its sister species B. rapa to reveal numerous chromosome rearrangements and asymmetrical gene loss in duplicated genomic blocks, asymmetrical amplification of transposable elements, differential gene co-retention for specific pathways and variation in gene expression, including alternative splicing, among a large number of paralogous and orthologous genes. Genes related to the production of anticancer phytochemicals and morphological variations illustrate consequences of genome duplication and gene divergence, imparting biochemical and morphological variation to B. oleracea. This study provides insights into Brassica genome evolution and will underpin research into the many important crops in this genus. Brassica oleracea is plant species comprising economically important vegetable crops. Here, the authors report the draft genome sequence of B. oleracea and, through a comparative analysis with the closely related B. rapa, reveal insights into Brassicaevolution and divergence of interspecific genomes and intraspecific subgenomes.
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Cites
Controlling the False Discovery Rate: A Practical and Powerful Approach to Multiple Testing
Benjamini, Y., & Hochberg, Y. (1995) · Journal of the Royal Statistical Society Series B: Statistical Methodology · doi:10.1111/j.2517-6161.1995.tb02031.x · Cited by 109,482
Tamura, K., Peterson, D., Peterson, N., Stecher, G., Nei, M., & Kumar, S. (2011) · Molecular Biology and Evolution · doi:10.1093/molbev/msr121 · Cited by 39,969
Kimura, M. (1980) · Journal of Molecular Evolution · doi:10.1007/bf01731581 · Cited by 29,778
MEGA4: Molecular Evolutionary Genetics Analysis (MEGA) Software Version 4.0
Tamura, K., Dudley, J., Nei, M., & Kumar, S. (2007) · Molecular Biology and Evolution · doi:10.1093/molbev/msm092 · Cited by 28,730
Clustal W and Clustal X version 2.0
Larkin, M. A., Blackshields, G., Brown, N. P., Chenna, R., McGettigan, P. A., McWilliam, H., Valentin, F., Wallace, I. M., Wilm, A., Lopez, R., et al. (2007) · Bioinformatics · doi:10.1093/bioinformatics/btm404 · Cited by 28,358
Trapnell, C., Roberts, A., Goff, L., Pertea, G., Kim, D., Kelley, D. R., Pimentel, H., Salzberg, S. L., Rinn, J. L., & Pachter, L. (2012) · Nature Protocols · doi:10.1038/nprot.2012.016 · Cited by 12,116
tRNAscan-SE: A Program for Improved Detection of Transfer RNA Genes in Genomic Sequence
Lowe, T. M., & Eddy, S. R. (1997) · Nucleic Acids Research · doi:10.1093/nar/25.5.955 · Cited by 10,905
Analysis of the genome sequence of the flowering plant Arabidopsis thaliana
Initiative, T. A. G. (2000) · Nature · doi:10.1038/35048692 · Cited by 9,301
OrthoMCL: Identification of Ortholog Groups for Eukaryotic Genomes
Li, L., Stoeckert, C. J., & Roos, D. S. (2003) · Genome Research · doi:10.1101/gr.1224503 · Cited by 5,707
The tomato genome sequence provides insights into fleshy fruit evolution
The Tomato Genome Consortium (2012) · Nature · doi:10.1038/nature11119 · Cited by 3,289
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Yang, J., Liu, D., Wang, X., Ji, C., Cheng, F., Liu, B., Hu, Z., Chen, S., Pental, D., Ju, Y., et al. (2016) · Nature Genetics · doi:10.1038/ng.3657 · Cited by 580
Self-citationGene retention, fractionation and subgenome differences in polyploid plants
Cheng, F., Wu, J., Cai, X., Liang, J., Freeling, M., & Wang, X. (2018) · Nature Plants · doi:10.1038/s41477-018-0136-7 · Cited by 398
Self-citationCheng, F., Sun, R., Hou, X., Zheng, H., Zhang, F., Zhang, Y., Liu, B., Liang, J., Zhuang, M., Liu, Y., et al. (2016) · Nature Genetics · doi:10.1038/ng.3634 · Cited by 382
Self-citationPolyploidy, the Nucleotype, and Novelty: The Impact of Genome Doubling on the Biology of the Cell
Doyle, J. J., & Coate, J. E. (2019) · International Journal of Plant Sciences · doi:10.1086/700636 · Cited by 365
Metadata
- Authors
- Liu, S., Liu, Y., Yang, X., Tong, C., Edwards, D., Parkin, I. A. P., Zhao, M., Ma, J., Yu, J., Huang, S., Wang, X., Wang, J., Lu, K., Fang, Z., Bancroft, I., Yang, T.-J., Hu, Q., Wang, X., Yue, Z., Li, H., Yang, L., Wu, J., Zhou, Q., Wang, W., King, G. J., Pires, J. C., Lu, C., Wu, Z., Sampath, P., Wang, Z., Guo, H., Pan, S., Yang, L., Min, J., Zhang, D., Jin, D., Li, W., Belcram, H., Tu, J., Guan, M., Qi, C., Du, D., Li, J., Jiang, L., Batley, J., Sharpe, A. G., Park, B.-S., Ruperao, P., Cheng, F., Waminal, N. E., Huang, Y., Dong, C., Wang, L., Li, J., Hu, Z., Zhuang, M., Huang, Y., Huang, J., Shi, J., Mei, D., Liu, J., Lee, T.-H., Wang, J., Jin, H., Li, Z., Li, X., Zhang, J., Xiao, L., Zhou, Y., Liu, Z., Liu, X., Qin, R., Tang, X., Liu, W., Wang, Y., Zhang, Y., Lee, J., Kim, H. H., Denoeud, F., Xu, X., Liang, X., Hua, W., Wang, X., Wang, J., Chalhoub, B., & Paterson, A. H.
- Venue
- Nature Communications
- Published
- 2014-05-23
- Volume
- 5
- Issue
- 1
- Pages
- 3930-3930
- ISSN
- 2041-1723 (ISSN-L)
- OpenAlex
- W1991552254
- Cited by
- 1,161
- References
- 62
- FWCI
- 106.68
- Type
- journal article
- Language
- en
- Open access
- hybrid
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- Liu, S., Liu, Y., Yang, X., Tong, C., Edwards, D., Parkin, I. A. P., Zhao, M., Ma, J., Yu, J., Huang, S., Wang, X., Wang, J., Lu, K., Fang, Z., Bancroft, I., Yang, T.-J., Hu, Q., Wang, X., Yue, Z., . . . Paterson, A. H. (2014). The Brassica oleracea genome reveals the asymmetrical evolution of polyploid genomes. Nature Communications. https://doi.org/10.1038/ncomms4930
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