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The chromosome-scale reference genome of black pepper (Piper nigrum L.) provides further insight into piperine biosynthesis

Hu, L.; Xu, Z.; Wang, M.; Fan, R.; Yuan, D.; Wu, B.; Wu, H.; Qin, X.; Yan, L.; Tan, L.; Sim, S.; Li, W.; Saski, C.S.; Daniell, H.; Wendel, J.F.; Lindsey, K.; Zhang, X.; Hao, C.; Jin, S.

The chromosome-scale reference genome of black pepper (Piper nigrum L.) provides further insight into piperine biosynthesis Thumbnail


L. Hu

Z. Xu

M. Wang

R. Fan

D. Yuan

B. Wu

H. Wu

X. Qin

L. Yan

L. Tan

S. Sim

W. Li

C.S. Saski

H. Daniell

J.F. Wendel

X. Zhang

C. Hao

S. Jin


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.

Journal Article Type Article
Acceptance Date Sep 16, 2019
Online Publication Date Oct 16, 2019
Publication Date Oct 16, 2019
Deposit Date Oct 1, 2019
Publicly Available Date Oct 30, 2019
Journal Nature Communications
Publisher Nature Research
Peer Reviewed Peer Reviewed
Volume 10
Article Number 4702
Public URL


Published Journal Article (2 Mb)

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