2022
DOI: 10.1038/s41467-022-31121-w
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Chromosome-level and haplotype-resolved genome provides insight into the tetraploid hybrid origin of patchouli

Abstract: Patchouli (Pogostemon cablin (Blanco) Benth.), a member of the Lamiaceae family, is an important aromatic plant that has been widely used in medicine and perfumery. Here, we report a 1.94 Gb chromosome-scale assembly of the patchouli genome (contig N50 = 7.97 Mb). The gene annotation reveals that tandem duplication of sesquiterpene biosynthetic genes may be a major contributor to the biosynthesis of patchouli bioactivity components. We further phase the genome into two distinct subgenomes (A and B), and identi… Show more

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Cited by 27 publications
(21 citation statements)
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“…This finding provides a new perspective for characterizing the biosynthesis of terpenes and/or patchoulol. The genome of P. cablin has been reported so far, and there are at least four FPPS genes in the patchouli genome (Shen et al, 2022), which are consistent with our previous transcriptome analysis results (Tang et al, 2019). In this study, FPPS3 in Tang's paper was selected, and named PcFPPS for study, because it was expressed at a higher level in flowers and leaves than the other three genes.…”
Section: Discussionsupporting
confidence: 85%
“…This finding provides a new perspective for characterizing the biosynthesis of terpenes and/or patchoulol. The genome of P. cablin has been reported so far, and there are at least four FPPS genes in the patchouli genome (Shen et al, 2022), which are consistent with our previous transcriptome analysis results (Tang et al, 2019). In this study, FPPS3 in Tang's paper was selected, and named PcFPPS for study, because it was expressed at a higher level in flowers and leaves than the other three genes.…”
Section: Discussionsupporting
confidence: 85%
“…S3B), echoing the high genome heterozygosity (4.22%). Given that the phenomenon was previously reported in other highly heterozygous genomes, e.g., Pogostemon cablin (3.69%) (34), we inferred that the assembled genome of L. chuanxiong contained two divergent haplotypes, which was further validated by Hi-C data. By Hi-C technology, most contigs (96.11% of the genome length) were anchored onto 22 chromosomes, and the predominant "1:1" Hi-C cross-link signals indicated 11 homoeologous chromosome pairs in L. chuanxiong (fig.…”
Section: Genome Assembly and Annotation Of L Chuanxiongsupporting
confidence: 75%
“…The majority of published assemblies of allopolyploids come from plants, where polyploidy might have shaped the genomes of around 70% of species [57]. Many allopolyploid plant genomes, however, show a higher level of synteny and structural conservation than we observe for M. javanica [13,45,58]. Similarly the few available chromosomal allopolyploid animal genome sequences available [14,15] do not show extensive deletions and chromosomal fissions as does our genome.…”
Section: Discussionmentioning
confidence: 56%