Genetic diversity of Kalopanax pictus populations in Korea based on the nrDNA ITS sequence

Abstract

Kalopanax pictus is a long-lived deciduous perennial tree in the family Araliaceae mainly distributed in the East Asia. In Korea, this species is of ecological and medical importance. Because typical populations of this species are small and distributed in patches, K. pictus has been considered as a narrow habitat species. To understand the genetic diversity and population structure of this species, the sequence variation of the nuclear ribosomal DNA (nrDNA) internal transcribed spacer (ITS) region was analyzed among 18 different K. pictus populations in the present investigation. The nrDNA ITS sequences of Korean populations investigated in this study showed identical of 616 bp in length, and no any nucleotide variation was found in the entire nrDNA ITS region sequence. This result suggested that the K. pictus populations in Korea might belong to the same isolate, and no mutation was found in the nrDNA ITS region. Compared with other known ITS sequence sources from K. pictus populations, only four variable nucleotide sites were found within the entire ITS region. Very narrow genetic diversity appearing in the population level of K. pictus makes us hypothesize that their relatively isolated habitats. The long-lived traits might be one main reason. However, another probability was that the nr-DNA ITS region might be noneffective in classifying populations of K. pictus. Thus, to further understand the phylogenetic relationship of K. pictus populations, more samplings should be performed based on more DNA sequences.

Phylogenetic analysis of the genus Conringia Heist. Ex Fabr. (Brassicaceae) in Turkey based on nuclear (nrITS) and chloroplast (trnL-F) DNA sequences

“…The ITS region of nuclear ribosomal DNA (nrDNA) is one of the most popular and effective genetic markers for inferring phylogenetic relationships and evolutionary studies in plants. Due to its high species distinction, technical amplification convenience, and high primer universality, it has been used in various organisms at genus and species levels (Sun et al, 2012;Guo et al, 2016;Demir et al, 2020). In particular, ITS regions that are characterized by parental inheritance patterns develop more rapidly than coding regions, leading to higher levels of variation among closely related individuals (Najarian et al, 2020).…”

DNA barcoding and phylogenetic analysis of endemic Astragalus nezaketiae and Vicia alpestris subsp. hypoleuca (Fabaceae): Evidence from nrDNA ITS and cpDNA matK and rbcL sequences

“…Thanks to this technique, it is easier to distinguish between species, and the identification process is quicker and more accurate (Koohdar et al, 2021). nrDNA ITS (internal transcribed spacer) and chloroplast DNA (rbcL, atpF-H, rpoB, rpoC1, ndhF, matK, trnH-psbA, rps16-trnQ, rpl32-trnL and trnL-F) sequences are used frequently in molecular phylogenetic analyses of plants and barcoding (Yang et al, 2010;Filiz and Koç, 2012;Sun et al, 2012;Dong et al, 2012;Wang et al, 2013;Techen et al, 2014;Lin et al, 2015;Dastpak et al, 2018;Kim et al, 2020;Inal and Karaca, 2019). In this study, we conducted DNA barcoding and phylogenetic analysis using one nuclear (ITS) and two chloroplast DNA regions (matK and rbcL) of endemic Astragalus nezaketiae and Vicia alpestris subsp.…”