Abstract Detail

Population Genetics/Genomics

Saldaña, Carla L. [1], Estrada, Richard [1], Salazar, Wilian [1], Guerrero-Abad, Juan C. [2], Vásquez, Héctor V. [1], Maicelo, Jorge L. [1], Arbizu, Carlos I. [1].

The first draft genome assembly of the national tree of Peru, quina (Cinchona officinalis, Rubiaceae).

Cinchona officinalis is a forest tree species native to the South American Andean zone. In Peru, it is considered an emblematic plant resource of the country's flora because it represents the plant diversity of the Peruvian territory. Its economic value is due to the content of quinine, an alkaloid widely recognized to prevent and control malaria. Currently, quina is considered a neglected forest species as genetic and genomic resources for this species are still limited. We here report the first draft genome assembly for the national tree of Peru. A single C. officinalis tree was selected to be sequenced from the Cajamarca region. High-quality genomic DNA was extracted from fresh leaves by the CTAB method with minor modifications. The whole genome was sequenced using a shotgun paired-end 150 strategy on the Illumina HiSeq 2500 platform. We generated approximately 494.5 million raw paired-end reads and a GC content of 35.97%. To estimate the genome size, low-quality regions of raw PE and universal adapters were removed, and the genome size of C.officinalis was subsequently estimated at 0.6 Gbp where the main peak lied at the k-mer depth of 100. This genome also presents a 0.996 % of heterozygosity. The genome data provided here is expected to contribute to a better understanding of the genetics of this species, as well as important molecular pathways that could be crucial for the biology, management and promoting its appropriate management and genomics-assisted breeding.

1 - Instituto Nacional de Innovación Agraria, Centro Experimental La Molina, Dirección de Desarrollo Tecnológico Agrario, Av. La Molina 1981, La Molina, Lima, Lima, 15024, Peru
2 - Instituto Nacional de Innovación Agraria, Centro Experimental La Molina, Dirección de Recursos Genéticos y Biotecnología, Av. La Molina 1981, La Molina, Lima, Lima, 15024, Peru

Keywords:
genome
Rubiaceae
NGS
DNA.

Presentation Type: Poster
Number: PPG005
Abstract ID:691
Candidate for Awards:None