A chromosome-scale genome assembly of the aromatic ornamental Coleus hadiensis reveals terpene synthase clusters and a Lamiaceae-conserved floral repressor candidate.
- 1Toyota Central R&D Labs., Inc., Nagakute, Aichi, 480-1192, Japan. [email protected].
- 2Toyota Central R&D Labs., Inc., Nagakute, Aichi, 480-1192, Japan.
Abstract
Background
Aromatic ornamentals are increasingly valued for indoor use because plant-associated volatiles can shape sensory experiences and have been discussed in relation to comfort and well-being, thereby driving demand for compact species with fragrance and controllable flowering. Coleus hadiensis (syn. Plectranthus hadiensis) is considered a promising indoor aromatic ornamental because of its fragrance and compact growth habit. However, genomic resources for Coleus remain limited, and the gene families associated with terpenoid biosynthesis and flowering regulation have not been systematically characterized.Results
Here, we present a chromosome-level reference genome of C. hadiensis generated using long-read sequencing together with Hi-C scaffolding and provide genome-wide annotation of repeats, terpene-related gene families, and flowering-associated regulators. The assembled 1.83 Gbp genome exhibited a highly repeat-rich genomic architecture dominated by Copia-type long terminal repeat retrotransposons with insertion-time estimates peaking approximately 1-1.5 million years ago. We identified 128 terpene synthase coding sequences distributed among multiple subfamilies, several of which formed tandem clusters. A genome-wide survey of phosphatidylethanolamine-binding protein genes further identified candidates associated with flowering regulation, including an FT-like regulator that exhibited repressor activity in a heterologous system.Conclusions
Our analyses of the chromosome-scale genome of C. hadiensis provide new insights into genomic features associated with fragrance and flowering traits and establish a foundation for understanding fragrance- and flowering-related characteristics and for advancing genomics-assisted breeding in C. hadiensis.
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BibTeX
@article{furuta2026chromosomescale,
title = {{A chromosome-scale genome assembly of the aromatic ornamental Coleus hadiensis reveals terpene synthase clusters and a Lamiaceae-conserved floral repressor candidate.}},
author = {Yoshikazu Furuta and Hiroki Sugimoto and Ritsuko Kitagawa-Yogo and Hinano Mizuno and Akari Nakasone and Hidenori Tanaka and Nobuhiko Muramoto},
journal = {BMC plant biology},
year = {2026},
month = jul,
doi = {10.1186/s12870-026-09605-4},
url = {https://europepmc.org/article/MED/42902169},
note = {CC BY-NC-ND},
}
RIS
TY - JOUR
TI - A chromosome-scale genome assembly of the aromatic ornamental Coleus hadiensis reveals terpene synthase clusters and a Lamiaceae-conserved floral repressor candidate.
AU - Yoshikazu Furuta
AU - Hiroki Sugimoto
AU - Ritsuko Kitagawa-Yogo
AU - Hinano Mizuno
AU - Akari Nakasone
AU - Hidenori Tanaka
AU - Nobuhiko Muramoto
PY - 2026
DA - 2026/07/01
JO - BMC plant biology
DO - 10.1186/s12870-026-09605-4
UR - https://europepmc.org/article/MED/42902169
AB - Background Aromatic ornamentals are increasingly valued for indoor use because plant-associated volatiles can shape sensory experiences and have been discussed in relation to comfort and well-being, thereby driving demand for compact species with fragrance and controllable flowering. Coleus hadiensis (syn. Plectranthus hadiensis) is considered a promising indoor aromatic ornamental because of its fragrance and compact growth habit. However, genomic resources for Coleus remain limited, and the gene families associated with terpenoid biosynthesis and flowering regulation have not been systematically characterized.Results Here, we present a chromosome-level reference genome of C. hadiensis generated using long-read sequencing together with Hi-C scaffolding and provide genome-wide annotation of repeats, terpene-related gene families, and flowering-associated regulators. The assembled 1.83 Gbp genome exhibited a highly repeat-rich genomic architecture dominated by Copia-type long terminal repeat retrotransposons with insertion-time estimates peaking approximately 1-1.5 million years ago. We identified 128 terpene synthase coding sequences distributed among multiple subfamilies, several of which formed tandem clusters. A genome-wide survey of phosphatidylethanolamine-binding protein genes further identified candidates associated with flowering regulation, including an FT-like regulator that exhibited repressor activity in a heterologous system.Conclusions Our analyses of the chromosome-scale genome of C. hadiensis provide new insights into genomic features associated with fragrance and flowering traits and establish a foundation for understanding fragrance- and flowering-related characteristics and for advancing genomics-assisted breeding in C. hadiensis.
SN - 1471-2229
ER -