Canales Nataly Allasi, Pérez-Escobar Oscar A, Powell Robyn F, Töpel Mats, Kidner Catherine, Nesbitt Mark, Maldonado Carla, Barnes Christopher J, Rønsted Nina, Przelomska Natalia A S, Leitch Ilia J, Antonelli Alexandre
Natural History Museum of Denmark, University of Copenhagen, Copenhagen, Denmark.
Royal Botanic Gardens, Kew, Richmond, UK.
GigaByte. 2022 Oct 6;2022:gigabyte71. doi: 10.46471/gigabyte.71. eCollection 2022.
The Andean fever tree ( L.; Rubiaceae) is a source of bioactive quinine alkaloids used to treat malaria. Vahl is a valuable cash crop within its native range in northwestern South America, however, genomic resources are lacking. Here we provide the first highly contiguous and annotated nuclear and plastid genome assemblies using Oxford Nanopore PromethION-derived long-read and Illumina short-read data. Our nuclear genome assembly comprises 603 scaffolds with a total length of 904 Mbp (∼82 of the full genome based on a genome size of 1.1 Gbp/1C). Using a combination of and reference-based transcriptome assemblies we annotated 72,305 coding sequences comprising 83% of the BUSCO gene set and 4.6% fragmented sequences. Using additional plastid and nuclear datasets we place in the Gentianales order. This first genomic resource for opens new research avenues, including the analysis of alkaloid biosynthesis in the fever tree.
安第斯金鸡纳树（L.；茜草科）是用于治疗疟疾的生物活性奎宁生物碱的来源。瓦尔金鸡纳树在南美洲西北部的原生范围内是一种有价值的经济作物，然而，其基因组资源却很缺乏。在此，我们利用牛津纳米孔PromethION产生的长读长数据和Illumina短读长数据，首次提供了高度连续且经过注释的核基因组和质体基因组组装。我们的核基因组组装包含603个支架，总长度为904兆碱基对（基于1.1吉碱基对/1C的基因组大小，约占全基因组的82%）。通过结合从头转录组组装和基于参考的转录组组装，我们注释了72305个编码序列，其中包括83%的BUSCO基因集和4.6%的片段化序列。利用额外的质体和核数据集，我们将瓦尔金鸡纳树置于龙胆目。这首个瓦尔金鸡纳树的基因组资源开辟了新的研究途径，包括对金鸡纳树中生物碱生物合成的分析。
