Chloroplast genome data of Luffa acutangula and Luffa aegyptiaca and their phylogenetic relationships

Data in Brief
Chutintorn YundaengSithichoke Tangphatsornruang

Abstract

Luffa acutangula and Luffa aegyptiaca are domesticated plants in the family Cucurbitaceae. They are mainly cultivated in the tropical and subtropical regions of Asia. The chloroplast genomes of many Cucurbitaceae species were sequenced to examine gene content and evolution. However, the chloroplast genome sequences of L. acutangula and L. aegyptiaca have not been reported. We report the first complete sequences of L. acutangula and L. aegyptiaca chloroplast genomes obtained from Pacific Biosciences sequencing and use them to infer evolutionary relationships. The chloroplast genomes of L. acutangula and L. aegyptiaca are 157,202 and 157,275 bp, respectively. Both genomes possessed the typical quadripartite structure and contained 131 genes, including 87 coding genes, 36 tRNA genes and 8 rRNA genes. We identified simple sequence repeats (SSR) and single nucleotide polymorphisms (SNP) from both chloroplast genomes. Polycistronic mRNA was examined in L. acutangula and L. aegyptiaca using RNA sequences from Isoform sequencing to identify co-transcribed genes. IR size and locations were compared to other species and found to be relatively unchanged. Phylogenetic analysis confirmed the close relationship between L. acutangula and L. a...Continue Reading

References

Feb 18, 2003·TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik·T ThielA Graner
Mar 26, 2003·Genome Research·Michael BrudnoSerafim Batzoglou
Jul 18, 2006·Nucleic Acids Research·Timo Lassmann, Erik L L Sonnhammer
May 20, 2009·Bioinformatics·Heng Li, Richard Durbin
Dec 17, 2009·DNA Research : an International Journal for Rapid Publication of Reports on Genes and Genomes·S TangphatsornruangS Tragoonrung
May 10, 2017·Nucleic Acids Research·Michael TillichStephan Greiner
May 4, 2018·Molecular Biology and Evolution·Sudhir KumarKoichiro Tamura

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Datasets Mentioned

BETA
PRJNA639390
SRR12011300
SRR12011301
MT381996
MT381997
SRR11445640
SRR11452010
were

Methods Mentioned

BETA
electrophoresis
PCR

Software Mentioned

Kalign
mVISTA
ARAGORN
CodonW
blastN
Burrows
- MEM )
IRscope
CANU
- Aligner (

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