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菊花脑的改良基因组组装揭示了萜类合酶基因家族的扩张和功能多样化。

An improved genome assembly of Chrysanthemum nankingense reveals expansion and functional diversification of terpene synthase gene family.

作者信息

Jiang Liping, Chen Shi, Wang Xu, Sen Lin, Dong Gangqiang, Song Chi, Liu Yifei

机构信息

Department of Pharmacy, Wuhan No.1 Hospital (Wuhan Hospital of Traditional and Western Medicine), Wuhan, 430022, People's Republic of China.

College of Pharmacy, Hubei University of Chinese Medicine, Wuhan, 430065, People's Republic of China.

出版信息

BMC Genomics. 2024 Jun 12;25(1):593. doi: 10.1186/s12864-024-10498-6.

DOI:10.1186/s12864-024-10498-6
PMID:38867153
原文链接:https://pmc.ncbi.nlm.nih.gov/articles/PMC11170872/
Abstract

BACKGROUND

Terpenes are important components of plant aromas, and terpene synthases (TPSs) are the key enzymes driving terpene diversification. In this study, we characterized the volatile terpenes in five different Chrysanthemum nankingense tissues. In addition, genome-wide identification and expression analysis of TPS genes was conducted utilizing an improved chromosome-scale genome assembly and tissue-specific transcriptomes. The biochemical functions of three representative TPSs were also investigated.

RESULTS

We identified tissue-specific volatile organic compound (VOC) and volatile terpene profiles. The improved Chrysanthemum nankingense genome assembly was high-quality, including a larger assembled size (3.26 Gb) and a better contig N50 length (3.18 Mb) compared to the old version. A total of 140 CnTPS genes were identified, with the majority representing the TPS-a and TPS-b subfamilies. The chromosomal distribution of these TPS genes was uneven, and 26 genes were included in biosynthetic gene clusters. Closely-related Chrysanthemum taxa were also found to contain diverse TPS genes, and the expression profiles of most CnTPSs were tissue-specific. The three investigated CnTPS enzymes exhibited versatile activities, suggesting multifunctionality.

CONCLUSIONS

We systematically characterized the structure and diversity of TPS genes across the Chrysanthemum nankingense genome, as well as the potential biochemical functions of representative genes. Our results provide a basis for future studies of terpene biosynthesis in chrysanthemums, as well as for the breeding of improved chrysanthemum varieties.

摘要

背景

萜类化合物是植物香气的重要组成部分，而萜类合酶（TPSs）是驱动萜类化合物多样化的关键酶。在本研究中，我们对五种不同的南京野菊组织中的挥发性萜类化合物进行了表征。此外，利用改进的染色体水平基因组组装和组织特异性转录组对TPS基因进行了全基因组鉴定和表达分析。还研究了三种代表性TPSs的生化功能。

结果

我们鉴定了组织特异性挥发性有机化合物（VOC）和挥发性萜类化合物谱。改进后的南京野菊基因组组装质量很高，与旧版本相比，组装大小更大（3.26 Gb），重叠群N50长度更好（3.18 Mb）。共鉴定出140个CnTPS基因，其中大多数属于TPS-a和TPS-b亚家族。这些TPS基因的染色体分布不均匀，26个基因包含在生物合成基因簇中。还发现密切相关的菊科类群含有多种TPS基因，大多数CnTPSs的表达谱具有组织特异性。所研究的三种CnTPS酶表现出多种活性，表明其具有多功能性。

结论

我们系统地表征了南京野菊基因组中TPS基因的结构和多样性，以及代表性基因的潜在生化功能。我们的结果为今后菊花萜类生物合成的研究以及改良菊花品种的育种提供了基础。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/adc9/11170872/6a8bc5992a27/12864_2024_10498_Fig6_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/adc9/11170872/7ca25b148a08/12864_2024_10498_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/adc9/11170872/75901887bcb5/12864_2024_10498_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/adc9/11170872/975c90edfc74/12864_2024_10498_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/adc9/11170872/eee237b5ce92/12864_2024_10498_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/adc9/11170872/f9cb4ed5929d/12864_2024_10498_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/adc9/11170872/6a8bc5992a27/12864_2024_10498_Fig6_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/adc9/11170872/7ca25b148a08/12864_2024_10498_Fig1_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/adc9/11170872/75901887bcb5/12864_2024_10498_Fig2_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/adc9/11170872/975c90edfc74/12864_2024_10498_Fig3_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/adc9/11170872/eee237b5ce92/12864_2024_10498_Fig4_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/adc9/11170872/f9cb4ed5929d/12864_2024_10498_Fig5_HTML.jpg
https://cdn.ncbi.nlm.nih.gov/pmc/blobs/adc9/11170872/6a8bc5992a27/12864_2024_10498_Fig6_HTML.jpg

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