Phylogenetic analysis of Dipterocarpaceae in Ketambe Research Station, Gunung Leuser National Park (Sumatra, Indonesia) based on rbcL and matK genes

Abstract

Harnelly E, Thomy Z, Fathiya N. 2018. Phylogenetic analysis of Dipterocarpaceae in Ketambe Research Station, GunungLeuser National Park (Sumatra, Indonesia) based on rbcL and matK genes. Biodiversitas 19: 1074-1080. Gunung Leuser National Parkhas several Research Stations. Ketambe is one of the Research Stations which is located in Aceh Tenggara district, Aceh province. Oneof the timber plants family which is abundant in Leuser Mountain is Dipterocarpaceae. However, the data of species and relationship ofDipterocarpaceae in Ketambe Research Station is lack and not available. The aim of the study is to analyze the phylogenetic ofDipterocarpaceae based on rbcL and matK gene in Ketambe Research Station. This research was carried out from July 2015 to August2016 in Ketambe Research Station and Forestry and Forest Genetics Laboratory of Molecular, Bogor Agricultural University. Themethod used quadrat sampling technique with purposive sampling and experimental laboratory consisting of DNA extraction, PCR,electrophoresis, and sequencing. The data analysis was done using BioEdit and MEGA6. The results showed that based onmorphological identification, there were five Dipterocarpaceae species found namely; Parashorea lucida, Shorea parvifolia, Shorealepidota, Shorea johorensis, and Hopea dryobalanoides. The phylogenetic tree based on rbcL gene showed that there were twomonophyletic groups, the first group was S. johorensis, S. lepidota, and H. dryobalanoides; and the second group consisted of S.parvifolia and P. lucida. The phylogenetic tree reconstruction based on matK gene showed that Shorea parvifolia and S. johorensis wereseparated in two different monophyletic groups.

Genetic diversity of sago palm (Metroxylon sagu) accessions based on plastid cpDNA matK gene as DNA barcoding

“…The specific chloroplast genes of Conifers were detected at 23, 26, 38, 48, 67, and 25 site changes in the frxC, rbcL, psbA, psbD, trnK, and 16S respectively among species of Conifer (Tsumura et al 1995). Segregations in the DNA plastid of matK gene in the sago palm genotype-2 were in harmony with phylogenetic of Dipterocarpaceae based on the matK gene (Harnelly et al 2018), and corresponds to the DNA barcode by using the matK gene in Pandanus (Zebua et al 2019). Therefore, the DNA Barcode by using plastid matK gene can be used to determine intra-species of the sago palm.…”

DNA barcode of Metroxylon sagu and others palm species using matK gene

“…Conifers' unique chloroplast genes were identified among Conifer species at 23, 26, 38, 48, 67, and 25 site changes in the frxC, rbcL, psbA, psbD, trnK, and 16S respectively (Tsumura et al 1995). Segregations in the matK gene DNA plastid in the clade-1, clade-2, and clade-3 of the palms family were in corresponding with Dipterocarpaceae phylogenetics based on the matK gene (Harnelly et al 2018) and in relating with the DNA barcode to the Pandanus by using matK gene (Zebua et al 2019).…”

Adaptive Evolution and Addressing the Relevance for Genetic Improvement of Sago Palm Commodity

“…The estimation of adaptive evolution that occurs over a long period of time (hundreds to thousands of years) can be determined based on the chloroplast Simple Sequence Repeat (cpSSR) marker and barcode matK gene in the cpDNA genome. The barcode matK gene was commonly use in the vascular plant, such as Dipterocarpaceae [18], Arecaceae [19] Adaptive Evolution and Addressing the Relevance for Genetic Improvement of Sago Palm… DOI: http://dx.doi.org /10.5772/intechopen.94395 and in the species of sago palm also [20]. The variation that occurs in a relatively short period of time can be determined based on RAPD markers and other markers used to investigate the nucleus genome.…”