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The pomegranate (Punica granatum L.) genome provides insights into fruit quality and ovule developmental biology.
Plant Biotechnol J. 2018 07; 16(7):1363-1374.PB

Abstract

Pomegranate (Punica granatum L.) has an ancient cultivation history and has become an emerging profitable fruit crop due to its attractive features such as the bright red appearance and the high abundance of medicinally valuable ellagitannin-based compounds in its peel and aril. However, the limited genomic resources have restricted further elucidation of genetics and evolution of these interesting traits. Here, we report a 274-Mb high-quality draft pomegranate genome sequence, which covers approximately 81.5% of the estimated 336-Mb genome, consists of 2177 scaffolds with an N50 size of 1.7 Mb and contains 30 903 genes. Phylogenomic analysis supported that pomegranate belongs to the Lythraceae family rather than the monogeneric Punicaceae family, and comparative analyses showed that pomegranate and Eucalyptus grandis share the paleotetraploidy event. Integrated genomic and transcriptomic analyses provided insights into the molecular mechanisms underlying the biosynthesis of ellagitannin-based compounds, the colour formation in both peels and arils during pomegranate fruit development, and the unique ovule development processes that are characteristic of pomegranate. This genome sequence provides an important resource to expand our understanding of some unique biological processes and to facilitate both comparative biology studies and crop breeding.

Authors+Show Affiliations

Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, China. College of Forestry, Nanjing Forestry University, Nanjing, China.Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, China. College of Biology and the Environment, Nanjing Forestry University, Nanjing, China.Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, China. College of Forestry, Nanjing Forestry University, Nanjing, China.Boyce Thompson Institute, Cornell University, Ithaca, NY, USA. USDA Robert W. Holley Center for Agriculture and Health, Ithaca, NY, USA.Biomarker Technologies Corporation, Beijing, China.Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, China. College of Forestry, Nanjing Forestry University, Nanjing, China.Biomarker Technologies Corporation, Beijing, China.Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, China. College of Forestry, Nanjing Forestry University, Nanjing, China.Biomarker Technologies Corporation, Beijing, China.Boyce Thompson Institute, Cornell University, Ithaca, NY, USA.Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, China. College of Forestry, Nanjing Forestry University, Nanjing, China.Biomarker Technologies Corporation, Beijing, China.Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, China. College of Forestry, Nanjing Forestry University, Nanjing, China.Biomarker Technologies Corporation, Beijing, China.College of Biological Sciences and Biotechnology, Beijing Forestry University, Beijing, China.College of Horticulture, Henan Agricultural University, Zhengzhou, China.Biomarker Technologies Corporation, Beijing, China.Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, China. College of Forestry, Nanjing Forestry University, Nanjing, China.Biomarker Technologies Corporation, Beijing, China.Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, China. College of Forestry, Nanjing Forestry University, Nanjing, China.Biomarker Technologies Corporation, Beijing, China.Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, China. College of Forestry, Nanjing Forestry University, Nanjing, China.Biomarker Technologies Corporation, Beijing, China.Co-Innovation Center for Sustainable Forestry in Southern China, Nanjing Forestry University, Nanjing, China. College of Forestry, Nanjing Forestry University, Nanjing, China.Biomarker Technologies Corporation, Beijing, China.

Pub Type(s)

Journal Article
Research Support, Non-U.S. Gov't
Research Support, U.S. Gov't, Non-P.H.S.

Language

eng

PubMed ID

29271050

Citation

Yuan, Zhaohe, et al. "The Pomegranate (Punica Granatum L.) Genome Provides Insights Into Fruit Quality and Ovule Developmental Biology." Plant Biotechnology Journal, vol. 16, no. 7, 2018, pp. 1363-1374.
Yuan Z, Fang Y, Zhang T, et al. The pomegranate (Punica granatum L.) genome provides insights into fruit quality and ovule developmental biology. Plant Biotechnol J. 2018;16(7):1363-1374.
Yuan, Z., Fang, Y., Zhang, T., Fei, Z., Han, F., Liu, C., Liu, M., Xiao, W., Zhang, W., Wu, S., Zhang, M., Ju, Y., Xu, H., Dai, H., Liu, Y., Chen, Y., Wang, L., Zhou, J., Guan, D., ... Zheng, H. (2018). The pomegranate (Punica granatum L.) genome provides insights into fruit quality and ovule developmental biology. Plant Biotechnology Journal, 16(7), 1363-1374. https://doi.org/10.1111/pbi.12875
Yuan Z, et al. The Pomegranate (Punica Granatum L.) Genome Provides Insights Into Fruit Quality and Ovule Developmental Biology. Plant Biotechnol J. 2018;16(7):1363-1374. PubMed PMID: 29271050.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - The pomegranate (Punica granatum L.) genome provides insights into fruit quality and ovule developmental biology. AU - Yuan,Zhaohe, AU - Fang,Yanming, AU - Zhang,Taikui, AU - Fei,Zhangjun, AU - Han,Fengming, AU - Liu,Cuiyu, AU - Liu,Min, AU - Xiao,Wei, AU - Zhang,Wenjing, AU - Wu,Shan, AU - Zhang,Mengwei, AU - Ju,Youhui, AU - Xu,Huili, AU - Dai,He, AU - Liu,Yujun, AU - Chen,Yanhui, AU - Wang,Lili, AU - Zhou,Jianqing, AU - Guan,Dian, AU - Yan,Ming, AU - Xia,Yanhua, AU - Huang,Xianbin, AU - Liu,Dongyuan, AU - Wei,Hongmin, AU - Zheng,Hongkun, Y1 - 2018/01/22/ PY - 2017/09/10/received PY - 2017/11/26/revised PY - 2017/12/18/accepted PY - 2017/12/23/pubmed PY - 2019/3/21/medline PY - 2017/12/23/entrez KW - Punica granatum KW - fruit quality development KW - genome assembly KW - ovule development KW - phylogenomic analysis SP - 1363 EP - 1374 JF - Plant biotechnology journal JO - Plant Biotechnol J VL - 16 IS - 7 N2 - Pomegranate (Punica granatum L.) has an ancient cultivation history and has become an emerging profitable fruit crop due to its attractive features such as the bright red appearance and the high abundance of medicinally valuable ellagitannin-based compounds in its peel and aril. However, the limited genomic resources have restricted further elucidation of genetics and evolution of these interesting traits. Here, we report a 274-Mb high-quality draft pomegranate genome sequence, which covers approximately 81.5% of the estimated 336-Mb genome, consists of 2177 scaffolds with an N50 size of 1.7 Mb and contains 30 903 genes. Phylogenomic analysis supported that pomegranate belongs to the Lythraceae family rather than the monogeneric Punicaceae family, and comparative analyses showed that pomegranate and Eucalyptus grandis share the paleotetraploidy event. Integrated genomic and transcriptomic analyses provided insights into the molecular mechanisms underlying the biosynthesis of ellagitannin-based compounds, the colour formation in both peels and arils during pomegranate fruit development, and the unique ovule development processes that are characteristic of pomegranate. This genome sequence provides an important resource to expand our understanding of some unique biological processes and to facilitate both comparative biology studies and crop breeding. SN - 1467-7652 UR - https://www.unboundmedicine.com/medline/citation/29271050/The_pomegranate__Punica_granatum_L___genome_provides_insights_into_fruit_quality_and_ovule_developmental_biology_ DB - PRIME DP - Unbound Medicine ER -