Aliaga Flavio, Zapata-Cruz Mario, Valverde-Zavaleta Silvia Ana
Grupo de Investigación en Ecología Evolutiva, Protección de Cultivos, Remediación Ambiental, y Biotecnología (EPROBIO), Universidad Privada del Norte, Trujillo, 13011, Peru.
Dirección de Investigación, Innovación y Responsabilidad Social, Universidad Privada del Norte, Trujillo, 13009, Peru.
BMC Res Notes. 2024 Mar 11;17(1):69. doi: 10.1186/s13104-024-06705-y.
The Peruvian Andean region is an important center for plant domestication. However, to date, there have been few genetic studies on native grain, which limits our understanding of their genetic diversity and the development of new genetic studies for their breeding. Herein, we revealed the plastid genome of Chenopodium petiolare to expand our knowledge of its molecular markers, evolutionary studies, and conservation genetics.
Total genomic DNA was extracted from fresh leaves (voucher: USM < PER > :MHN333570). The DNA was sequenced using Illumina Novaseq 6000 (Macrogen Inc., Seoul, Republic of Korea) and reads 152,064 bp in length, with a large single-copy region of 83,520 bp and small single-copy region of 18,108 bp were obtained. These reads were separated by a pair of inverted repeat regions (IR) of 25,218 bp, and the overall guanine and cytosine (GC) was 37.24%. The plastid genome contains 130 genes (111 genes were unique and 19 genes were found duplicated in each IR region), including 86 protein-coding genes, 36 transfer RNA-coding genes, eight ribosomal RNA-coding genes, and 25 genes with introns (21 genes with one intron and four genes with two introns). The phylogenetic tree reconstructed based on single-copy orthologous genes and maximum likelihood analysis indicated that Chenopodium petiolare is most closely related to Chenopodium quinoa.
秘鲁安第斯地区是植物驯化的重要中心。然而，迄今为止，对当地谷物的遗传研究很少，这限制了我们对其遗传多样性的理解以及为其育种开展新的遗传研究。在此，我们揭示了柄叶藜的质体基因组，以扩展我们对其分子标记、进化研究和保护遗传学的认识。
从新鲜叶片中提取总基因组DNA（凭证：USM < PER > :MHN333570）。使用Illumina Novaseq 6000（韩国首尔Macrogen公司）对DNA进行测序，获得了长度为152,064 bp的 reads，其中大单拷贝区域为83,520 bp，小单拷贝区域为18,108 bp。这些reads被一对25,218 bp的反向重复区域（IR）隔开，总体鸟嘌呤和胞嘧啶（GC）含量为37.24%。质体基因组包含130个基因（111个基因是独特的，每个IR区域有19个基因是重复的），包括86个蛋白质编码基因、36个转运RNA编码基因、8个核糖体RNA编码基因以及25个含内含子的基因（21个基因含一个内含子，4个基因含两个内含子）。基于单拷贝直系同源基因重建的系统发育树和最大似然分析表明，柄叶藜与藜麦关系最为密切。
