The chromosome-scale reference genome of black pepper provides insight into piperine biosynthesis

Lisong Hu, Zhongping Xu, Maojun Wang, Rui Fan, Daojun Yuan, Baoduo Wu, Huasong Wu, Xiaowei Qin, Lin Yan, Lehe Tan, Soonliang Sim, Wen Li, Christopher A Saski, Henry Daniell, Jonathan F. Wendel, Keith Lindsey, Xianlong Zhang, Chaoyun Hao () and Shuangxia Jin ()
Additional contact information
Lisong Hu: Spice and Beverage Research Institute, Chinese Academy of Tropical Agricultural Sciences
Zhongping Xu: Huazhong Agricultural University
Maojun Wang: Huazhong Agricultural University
Rui Fan: Spice and Beverage Research Institute, Chinese Academy of Tropical Agricultural Sciences
Daojun Yuan: Huazhong Agricultural University
Baoduo Wu: Spice and Beverage Research Institute, Chinese Academy of Tropical Agricultural Sciences
Huasong Wu: Spice and Beverage Research Institute, Chinese Academy of Tropical Agricultural Sciences
Xiaowei Qin: Spice and Beverage Research Institute, Chinese Academy of Tropical Agricultural Sciences
Lin Yan: Spice and Beverage Research Institute, Chinese Academy of Tropical Agricultural Sciences
Lehe Tan: Spice and Beverage Research Institute, Chinese Academy of Tropical Agricultural Sciences
Soonliang Sim: Academy of Sciences Malaysia
Wen Li: Clemson University
Christopher A Saski: Clemson University
Henry Daniell: School of Dental Medicine, University of Pennsylvania
Jonathan F. Wendel: Iowa State University
Keith Lindsey: Durham University
Xianlong Zhang: Huazhong Agricultural University
Chaoyun Hao: Spice and Beverage Research Institute, Chinese Academy of Tropical Agricultural Sciences
Shuangxia Jin: Huazhong Agricultural University

Nature Communications, 2019, vol. 10, issue 1, 1-11

Abstract: Abstract Black pepper (Piper nigrum), dubbed the ‘King of Spices’ and ‘Black Gold’, is one of the most widely used spices. Here, we present its reference genome assembly by integrating PacBio, 10x Chromium, BioNano DLS optical mapping, and Hi-C mapping technologies. The 761.2 Mb sequences (45 scaffolds with an N50 of 29.8 Mb) are assembled into 26 pseudochromosomes. A phylogenomic analysis of representative plant genomes places magnoliids as sister to the monocots-eudicots clade and indicates that black pepper has diverged from the shared Laurales-Magnoliales lineage approximately 180 million years ago. Comparative genomic analyses reveal specific gene expansions in the glycosyltransferase, cytochrome P450, shikimate hydroxycinnamoyl transferase, lysine decarboxylase, and acyltransferase gene families. Comparative transcriptomic analyses disclose berry-specific upregulated expression in representative genes in each of these gene families. These data provide an evolutionary perspective and shed light on the metabolic processes relevant to the molecular basis of species-specific piperine biosynthesis.

Date: 2019
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DOI: 10.1038/s41467-019-12607-6

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