Characterization and phylogenetic analysis of the complete plastid genome of Theobroma bicolor (Malvaceae) from Peru

Daniel Tineo; Martha S Calderon; Jorge L Maicelo; Manuel Oliva; Ángel F Huamán-Pilco; Oswaldo Ananco; Danilo E Bustamante

doi:10.1080/23802359.2024.2310134

Characterization and phylogenetic analysis of the complete plastid genome of Theobroma bicolor (Malvaceae) from Peru

Mitochondrial DNA B Resour. 2024 Feb 1;9(2):227-232. doi: 10.1080/23802359.2024.2310134. eCollection 2024.

Authors

Daniel Tineo¹, Martha S Calderon^{1

2}, Jorge L Maicelo¹, Manuel Oliva¹, Ángel F Huamán-Pilco³, Oswaldo Ananco¹, Danilo E Bustamante^{1

2}

Affiliations

¹ Instituto de Investigación para el Desarrollo Sustentable de Ceja de Selva (INDES-CES), Universidad Nacional Toribio Rodríguez de Mendoza, Chachapoyas, Peru.
² Instituto de Investigación en Ingeniería Ambiental (INAM), Facultad de Ingeniería Civil y Ambiental (FICIAM), Universidad Nacional Toribio Rodríguez de Mendoza, Chachapoyas, Peru.
³ Departamento de Sanidad Vegetal, Facultad de Ciencias Agronómicas, Universidad de Chile, Santiago, Chile.

Abstract

Theobroma bicolor Bonpl. 1806 is distributed in the Neotropics from southern Mexico to the Peruvian and Brazilian Amazon. High-throughput sequencing of T. bicolor from Peru (KUELAP2926) resulted in the assembly of its complete plastid genome (GenBank accession number OQ557154). The chloroplast genome of T. bicolor is A + T-rich (62.97%), having 160,317 bp in size and containing 130 genes; including a pair of inverted repeat regions (IRs) of 25,462 bp separated by a large single copy region (LSC) of 89,221 bp and a small single copy region (SSC) of 20,172 bp. This plastid genome is similar in length, content, and organization to other members of the genus Theobroma. Phylogenetic analyses of T. bicolor support its sistership to the clade comprising T. cacao and T. grandiflorum. This study may contribute valuable information to the phylogenetic relationships within the genus Theobroma.

Keywords: Amazonas region; Malvaceae; Peru; plastid genome; theobroma.

Grants and funding

This research was funded by INDES-CES/UNTRM throughout Project CUI No. [2252878] ‘FISIOBVEG’. This study was also funded by Vicerrectorado de Investigación de la Universidad Nacional Toribio Rodríguez de Mendoza [DITT-2023-BM]. It was also partially funded by CONCYTEC under Project MiCroResi [PE501079652-2022-PROCIENCIA].