Diversity of Tea (Camellia sinensis) Grown in Vietnam based on Morphological Characteristics and Inter-primer Binding Sites (iPBS) Marker

Abstract

Six iBPS primers and twenty-one morphological traits were used to assess the genetic diversity and relationships of 15 tea [Camellia sinensis (L.) O. Kuntze] accessions grown in Vietnam. The similarity index matrix generated from Dice coefficient (iPBS analysis) and the dissimilarity index matrix generated from Euclidian distance coefficient (morphological analysis) were used to build the respective un-weighted pair group method with arithmetic average (UPGMA) derived-dendrograms revealing the genetic relationships among the tested tea accessions. The iPBS analysis showed a slightly different result as compared to the result of morphological analysis which indicated that the group of Shan and Assam type were separate from the group of China type and the hybrids related to China type. Meanwhile, the iPBS analysis clustered 15 tea genotypes into two main groups; the tea genotypes of small leaved China, Assam-small leaved China hybrid and Shan-large leaved China hybrid type, with small leaf size, came together into one group; the other one was mainly nested by the tea genotypes of Shan, Assam and Shan-small leaved China type, with large leaf size. However, the iPBS analysis also shared the same basic agreements with the morphological analysis. All the tea genotypes, which originated from the same parents or the same type of crossing parental couple, revealed close relatedness. The results of morphological analysis are conformable with the conventional classification of tea taxa and give basic relative information among 15 tea genotypes to demonstrate particularly the result of molecular analysis. It could be concluded that iPBS is a useful DNA based-marker for evaluation of genetic diversity and relationships of tea.

Genetic diversity of pinto and fresh bean (Phaseolusvulgaris L.) germplasm collected from Erzincan province of Turkey by inter-primer binding site (iPBS) retrotransposon markers

“…Nemli et al (2015) in a similar study on beans reported the PIC value as between 0.03 (iPBS 2375) and 0.94 (iPBS 2394) with an average value of 0.73. Present findings comply with the values reported for different plant species such as common bean with a mean 0.73 PIC value (Nemli et al, 2015), guava with 0.28 PIC value (Mehmood et al, 2016), tea with PIC value 0.30 (Phong et al, 2016). Those values were similar with the present PIC value.…”

Genetic structure and diversity of Adonis L. (Ranunculaceae) populations collected from Turkey by inter-primer binding site (iPBS) retrotransposon markers

“…In the current study, the polymorphism percentage varied between 95% (iPBS 2079) and 100% (the remaining iPBS primers) with an average of 99.5% (Table 3). In the genetic diversity study of Adonis conducted by Boronnikova and Kalendar (2010) (Phong et al, 2016).…”

DNA profiling and assessment of genetic diversity of relict speciesAllium altaicumPall. on the territory of Altai

“…Improved design of PCR primers from interspersed repeats sequences make these approaches more efficient than any variants of the RAPD and ISSR methods. Reproducibility of PCR and high polymorphism can be used as an express technology in assessing the ecogeographic diversity of any plant species ( Kumar et al, 2018 ; Phong et al, 2016 ). Retrotransposons are activated in response to the influence of various forms of abiotic and biotic stresses, and this can lead to genome destabilization ( Belyayev et al, 2010 ; Kalendar et al, 2020 ; Vicient et al, 2001 ; Wessler, 1996 ).…”

“…Universal PBS primers ( Kalendar et al, 2010 ) were used to assess the genetic diversity of various A. altaicum populations. Nucleotide sequences of these PBS sequences are universal for all LTR retrotransposons and belong to highly repeated repeats typical for higher eukaryotes ( Phong et al, 2016 ). The length of PBS sequences of retrotransposons at which the primers were oriented in both directions did not exceed 18 nucleotides.…”