Plastome phylogenomics and morphological traits analyses provide new insights into the phylogenetic position, species delimitation and speciation of Triplostegia (Caprifoliaceae)

Table 3 Tree-based species discrimination rates of Triplostegia by using highly variable plastid DNA regions, ndhF, ndhF-trnN, rpoB-trnC, and standard plant DNA barcodes, rbcL, matK, and ITS singly or in combinations

DNA regions or their combinations	Bootstrap values of monophyletic clades			Percent species discrimination
DNA regions or their combinations	T. glandulifera	T. grandiflora	Triplostegia sp. A	Percent species discrimination
ndhF	83	n.d.	n.d.	33.3
ndhF-trnN	n.d.	100	n.d.	33.3
rpoB-trnC	100	87	98	100
ycf1	100	80	90	100
rbcL	87	n.d.	n.d.	33.3
matK	n.d.	n.d.	n.d.	0
ITS	n.d.	100	80	66.7
ndhF + ndhF-trnN	71	100	n.d.	66.7
ndhF + rpoB-trnC	100	95	98	100
ndhF + ITS	72	100	94	100
ndhF-trnN + rpoB-trnC	100	95	98	100
ndhF-trnN + ITS	n.d.	100	85	66.7
rpoB-trnC + ITS	100	100	100	100
rbcL + matK	n.d.	n.d.	n.d.	0
rbcL + ITS	n.d.	100	84	66.7
matK + ITS	n.d.	100	93	66.7
ndhF + ndhF-trnN + rpoB-trnC	100	100	92	100
ndhF + ndhF-trnN + ITS	75	100	89	100
ndhF + rpoB-trnC + ITS	100	100	100	100
ndhF-trnN + rpoB-trnC + ITS	100	100	99	100
ndhF + ndhF-trnN + rpoB-trnC+ ITS	100	100	99	100
rbcL + matK + ITS	n.d.	100	93	66.7
plastid genome	100	100	100	100

n.d., species failed to form a monophyletic clade with bootstrap value ≥70% and thus assigned “not discriminated, n.d.”. The standard plant DNA barcode trnH-psbA was not included in our tree-based analyses due to an insufficient number of informative sites for species discrimination

ISSN: 1471-2229