The sugarcane mitochondrial genome: assembly, phylogenetics and transcriptomics.

ABSTRACT:

Background

Chloroplast genomes provide insufficient phylogenetic information to distinguish between closely related sugarcane cultivars, due to the recent origin of many cultivars and the conserved sequence of the chloroplast. In comparison, the mitochondrial genome of plants is much larger and more plastic and could contain increased phylogenetic signals. We assembled a consensus reference mitochondrion with Illumina TruSeq synthetic long reads and Oxford Nanopore Technologies MinION long reads. Based on this assembly we also analyzed the mitochondrial transcriptomes of sugarcane and sorghum and improved the annotation of the sugarcane mitochondrion as compared with other species.

Methods

Mitochondrial genomes were assembled from genomic read pools using a bait and assemble

SUBMITTER: Lloyd Evans D 

PROVIDER: S-EPMC6764373 | biostudies-literature | 2019

REPOSITORIES: biostudies-literature