The complete chloroplast genome of Thermopsis lanceolata: genome structure and its phylogenetic relationships within the family Fabaceae

Figures & data

Figure 1. A flowering T. lanceolata.

Figure 2. Chloroplast genome map of T. lanceolata. Genes drawn outside the outer circle are transcribed clockwise, and those inside are transcribed counter-clockwise. Genes belonging to diferent functional groups are color-coded. The dark gray in the inner circle indicates GC content of the chloroplast genomes.

Table 1. Gene composition information and functional classification of T. lanceolata chloroplast genome.

Function of genes	Group of genes	Name of genes
Genes for photosynthesis	Subunits of photosystem I	psaA, psaB, psaC, psaI, psaJ
	Subunits of photosystem II	psbA, psbB, psbC, psbD, psbE, psbF, psbH, psbI, psbJ, psbK, psbL, psbM, psbN, psbT, psbZ
	Subunits of ATP synthase	atpA, atpB, atpE, atpF*, atpH, atpI
	Subunits of cytochrome b/f complex	petA, petB, petD, petG, petL
	Subunits of NADH-dehydrogenase	ndhA*, ndhB*^a, ndhC, ndhD, ndhE, ndhF, ndhG, ndhH, ndhI, ndhJ, ndhK
	RuBisco Large subunit of RuBisco	rbcL
Self-replication	Ribosomal RNAs	rrn16^a, rrn23^a, rrn4.5^a, rrn5^a
	Transfer RNAs	trnA-UGC*^a, trnC-GCA, trnD-GUC, trnE-UUC*, trnF-GAA, trnG-UCC, trnH-GUG, trnI-CAU, trnI-GAU^a, trnl-CAA, trnl-UAA, trnK-UUU*, trnL-UAA*, trnL-CAA^a, trnY-GUA, trnM-CAU, trnfM-CAU, trnN-GUU^a, trnP-GGG, trnP-UGG, trnR-ACG^a, trnR-UCU, trnS-GCU, trnS-UGA, trnS-GGA, trnT-GGU*, trnT-UGU, trnV-GAC^a, trnV-UAC*, trnW-CCA
	Proteins of small ribosomal subunit	rps2, rps3, rps4, rps7^a, rps8, rps11, rps12**^a, rps14, rps15, rps16*, rps18, rps19
	Proteins of large ribosomal subunit	rpl2*^a, rpl14, rpl16, rpl20, rpl22, rpl23^a, rpl32, rpl33, rpl36
	Subunits of RNA polymerase	rpoA, rpoB, rpoC1*, rpoC2
Other genes	Acetyl-CoA carboxylase	AccD
	Cytochrome c biogenesis	ccsA
	Envelope membrane protein	cemA
	Maturase	matK
	Protease	clpP**
Unknown	Conserved	ycf1, ycf2, ycf3**, ycf4, ycf15 ^a

Note. *Represents genes with one intron, **represents genes with two introns, ^arepresents repeat genes (genes in the IR region).

Figure 3. Phylogenetic tree for 14 Fabaceae species using Maximum Likelihood (ML) method, based on alignments of 64 protein-coding genes shared among 14 species, G. max was set as the outgroup. Numbers next to the branches indicated bootstrap values from 1000 replicates.

Data availability statement

The genome sequence data that support the findings of this study are openly available in GenBank of NCBI at [https://www.ncbi.nlm.nih.gov] (https://www.ncbi.nlm.nih.gov/) under the accession no. MN841458. The associated BioProject, SRA, and Bio-Sample numbers are PRJNA706880, SRR13871830, and SAMN18131232, respectively.