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

dc.contributor.author Hu, Lisong
dc.contributor.author Xu, Zhongping
dc.contributor.author Wendel, Jonathan
dc.contributor.author Wang, Maojun
dc.contributor.author Fan, Rui
dc.contributor.author Yuan, Daojun
dc.contributor.author Wu, Baoduo
dc.contributor.author Wu, Huasong
dc.contributor.author Qin, Xiaowei
dc.contributor.author Yan, Lin
dc.contributor.author Tan, Lehe
dc.contributor.author Sim, Soonliang
dc.contributor.author Li, Wen
dc.contributor.author Saski, Christopher
dc.contributor.author Daniell, Henry
dc.contributor.author Wendel, Jonathan
dc.contributor.author Lindsey, Keith
dc.contributor.author Zhang, Xianlong
dc.contributor.author Hao, Chaoyun
dc.contributor.author Jin, Shuangxia
dc.contributor.department Ecology, Evolution and Organismal Biology
dc.date 2019-10-29T03:03:48.000
dc.date.accessioned 2020-06-30T02:18:29Z
dc.date.available 2020-06-30T02:18:29Z
dc.date.copyright Tue Jan 01 00:00:00 UTC 2019
dc.date.issued 2019-01-01
dc.description.abstract <p>Black pepper (<em>Piper nigrum</em>), 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.</p>
dc.description.comments <p>This article is published as Hu, Lisong, Zhongping Xu, Maojun Wang, Rui Fan, Daojun Yuan, Baoduo Wu, Huasong Wu et al. "The chromosome-scale reference genome of black pepper provides insight into piperine biosynthesis." <em>Nature Communications</em> 10 (2019): 4702. doi: <a href="https://doi.org/10.1038/s41467-019-12607-6">10.1038/s41467-019-12607-6</a>.</p>
dc.format.mimetype application/pdf
dc.identifier archive/lib.dr.iastate.edu/eeob_ag_pubs/373/
dc.identifier.articleid 1379
dc.identifier.contextkey 15587423
dc.identifier.s3bucket isulib-bepress-aws-west
dc.identifier.submissionpath eeob_ag_pubs/373
dc.identifier.uri https://dr.lib.iastate.edu/handle/20.500.12876/23257
dc.language.iso en
dc.source.bitstream archive/lib.dr.iastate.edu/eeob_ag_pubs/373/2019_Wendel_ChromosomeScale.pdf|||Fri Jan 14 23:50:27 UTC 2022
dc.source.uri 10.1038/s41467-019-12607-6
dc.subject.disciplines Agronomy and Crop Sciences
dc.subject.disciplines Computational Biology
dc.subject.disciplines Ecology and Evolutionary Biology
dc.subject.disciplines Genetics and Genomics
dc.title The chromosome-scale reference genome of black pepper provides insight into piperine biosynthesis
dc.type article
dc.type.genre article
dspace.entity.type Publication
relation.isAuthorOfPublication 6d2c458f-b99a-4af5-8869-8b7b2e304592
relation.isOrgUnitOfPublication 6fa4d3a0-d4c9-4940-945f-9e5923aed691
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