The complete chloroplast genome sequence of tung tree (Vernicia fordii): Organization and phylogenetic relationships with other angiosperms

Scientific Reports
Ze LiXiaofeng Tan

Abstract

Tung tree (Vernicia fordii) is an economically important tree widely cultivated for industrial oil production in China. To better understand the molecular basis of tung tree chloroplasts, we sequenced and characterized its genome using PacBio RS II sequencing platforms. The chloroplast genome was sequenced with 161,528 bp in length, composed with one pair of inverted repeats (IRs) of 26,819 bp, which were separated by one small single copy (SSC; 18,758 bp) and one large single copy (LSC; 89,132 bp). The genome contains 114 genes, coding for 81 protein, four ribosomal RNAs and 29 transfer RNAs. An expansion with integration of an additional rps19 gene in the IR regions was identified. Compared to the chloroplast genome of Jatropha curcas, a species from the same family, the tung tree chloroplast genome is distinct with 85 single nucleotide polymorphisms (SNPs) and 82 indels. Phylogenetic analysis suggests that V. fordii is a sister species with J. curcas within the Eurosids I. The nucleotide sequence provides vital molecular information for understanding the biology of this important oil tree.

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Citations

Feb 28, 2019·BMC Evolutionary Biology·Zhang-Hai LiXiao-Hua Jin
Apr 4, 2021·Scientific Reports·Aldanah A Alqahtani, Robert K Jansen
Jul 13, 2021·Mitochondrial DNA. Part B, Resources·Xun-Ju LiuQing Chen

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Datasets Mentioned

BETA
KY628420

Methods Mentioned

BETA
PCR

Software Mentioned

MEGA
PacBio RS II
HGAP
MISA
PacBio RS
GenomeVx
Mauve
REPuter
FastTree
MUSCLE

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