Sato S., et al. 2011 Sequence analysis of the genome of an oil-bearing tree, Jatropha curcas L.
5 年 之前
Sequence analysis of the genome of an oil-bearing tree, Jatropha curcas L.
Sato S., Hirakawa H., Isobe S., Watanabe A., Kato M., Kawashima K., Minami C., Muraki A., Nakazaki N., Takahashi C., Nakayama S., Kishida Y., Kohara M., Yamada M., Tsuruoka H., Sasamoto S., Tabata S., Aizu T., Toyoda A., Shin-I T., Minakuchi Y., Kohara Y., Fujiyama A., Tsuchimoto S., Kajiyama S., Makigano E., Ohmido N., Shibagaki N., Cartagena J.A., Wada N., Kohinata T., Atefeh A., Yuasa S., Matsunaga S., Fukui K. (2011)
DNA Research, 18, 65-76. doi: 10.1093/dnares/dsq030
www.kazusa.or.jp/jatropha_3.0/index.html
New Jatropha genome assembly
4 年 之前
Mao-Sheng Chen#, Longjian Niu#, Mei-Li Zhao, Chuanjia Xu, Bang-Zhen Pan, Qiantang Fu, Yan-Bin Tao, Huiying He, Chunhui Hou*, Zeng-Fu Xu*. 2020. De novo genome assembly and Hi-C analysis reveal the association between chromatin architecture alterations and sex differentiation in the woody plant Jatropha curcas. GigaScience 9 (2): 1-12 (giaa009). DOI:
doi.org/10.1093/gigascience/giaa009.
Chen MS; Niu L; Zhao ML; Xu C; Pan BZ; Fu Q; Tao YB; He H; Hou C; Xu ZF (2020): Supporting data for "De novo genome assembly and Hi-C analysis reveal the association between chromatin architecture alterations and sex differentiation in the woody plant Jatropha curcas". GigaScience Database.
dx.doi.org/10.5524/100689
Sequence data download:
CNGB
db.cngb.org/search/project/CNP0000449/
NCBI bioproject
www.ncbi.nlm.nih.gov/bioproject/PRJNA596547
GigaScience Database
gigadb.org/dataset/100689
Kancharla, N. et al. 2019 De Novo Sequencing and Hybrid Assembly of the Biofuel Crop Jatropha curcas L
5 年 之前
Kancharla, N., Jalali, S., Narasimham, J.V., Nair, V., Yepuri, V., Thakkar, B., Reddy, V.B., Kuriakose, B., Madan, N., S, A. (2019). De Novo Sequencing and Hybrid Assembly of the Biofuel Crop Jatropha curcas L.: Identification of Quantitative Trait Loci for Geminivirus Resistance. Genes (Basel) 10 (1): 69. doi:10.3390/genes10010069
JCDB: a comprehensive knowledge base for Jatropha curcas, an emerging model for woody energy plants
4 年 之前
JCDB:
jcdb.xtbg.ac.cn/
Jatropha curcas is an oil-bearing plant, and has seeds with high oil content (~ 40%). Several advantages, such as easy genetic transformation and short generation duration, have led to the emergence of J. curcas as a model for woody energy plants. With the development of high-throughput sequencing, the genome of Jatropha curcas has been sequenced by different groups and a mass of transcriptome data was released. How to integrate and analyze these omics data is crucial for functional genomics research on J. curcas. By establishing pipelines for processing novel gene identification, gene function annotation, and gene network construction, we systematically integrated and analyzed a series of J. curcas transcriptome data. Based on these data, we constructed a J. curcas database (JCDB), which not only includes general gene information, gene functional annotation, gene interaction networks, and gene expression matrices but also provides tools for browsing, searching, and downloading data, as well as online BLAST, the JBrowse genome browser, ID conversion, heatmaps, and gene network analysis tools. JCDB is the most comprehensive and well annotated knowledge base for J. curcas. We believe it will make a valuable contribution to the functional genomics study of J. curcas. The database is accessible at
jcdb.xtbg.ac.cn.
Xuan Zhang#, Bang-Zhen Pan#, Maosheng Chen, Wen Chen, Jing Li, Zeng-Fu Xu* and Changning Liu*. 2019. JCDB: a comprehensive knowledge base for Jatropha curcas, an emerging model for woody energy plants. BMC Genomics 20, 958. doi:10.1186/s12864-019-6356-z.
Ha, J. 2019 Genome sequence of Jatropha curcas L., a non-edible biodiesel plant, provides a resource to improve seed-related traits
5 年 之前
Ha, J., Shim, S., Lee, T., Kang, Y.J., Hwang, W.J., Jeong, H., Laosatit, K., Lee, J., Kim, S.K., Satyawan, D., Lestari, P., Yoon, M.Y., Kim, M.Y., Chitikineni, A., Tanya, P., Somta, P., Srinives, P., Varshney, R.K., Lee, S.-H. (2019). Genome sequence of Jatropha curcas L., a non-edible biodiesel plant, provides a resource to improve seed-related traits. Plant Biotechnology Journal 17 (2): 517-530. doi:10.1111/pbi.12995
