GENETIC DIVERSITY OF GREEN CHIRETA (Andrographis paniculata (Burm.f.) Wall. Ex Nees.) FROM INDONESIA BASED ON ISSR AND RAPD MARKERS

Arif, Muhammad; Subositi, Dyah; SARI, ANISKA NOVITA; Aristya, Ganies Riza; Lesmana, Indra; Kasiamdari, Rina Sri

doi:10.55230/mabjournal.v49i1.1655

Cited by 4 publications

(3 citation statements)

References 24 publications

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“…These morphological differences indicate that there is genetic variation among the samples used. Morphological and molecular characteristics can be used to determine genetic information and relationship (Arif et al 2020;Uslan and Pharmawati 2020). Because morphological characteristics are significantly impacted by environmental conditions and phases of plant growth , the study of variability and genetic diversity, as well as the identification of taxa in plant groups and their arrangement, necessitates a combination of morphological characters and other characters, such as molecular characters.…”

Section: The Phylogenetic Treementioning

confidence: 99%

Genetic variability and phylogenetic relationships of Begonia multangula based on atpB-rbcL non-coding spacer of cpDNA sequences

Warseno

Efendi²,

CHASANI

et al. 2022

Biodiversitas

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Abstract. Warseno T, Efendi M, Chasani AR, Daryono BS. 2022. Genetic variability and phylogenetic relationships of Begonia multangula based on atpB-rbcL non-coding spacer of cpDNA sequences. Biodiversitas 23: 5491-5501. Begonia (Begoniaceae) belongs to Section Platycentrum-Sphenanthera Group which has a wide distribution from Sumatra to the Lesser Sunda Islands and Sulawesi. Information on B. multangula genetic variability and intraspecies relationships based on molecular characters is critical for developing appropriate strategies in conservation biology, breeding activities, and many other applied fields. The genetic variability and interspecific relationships of B. multangula in Indonesia were investigated using sequence data from the atpB-rbcL intergenic spacer (IGS) cpDNA regions. The atpB-rbcL IGS fragment was amplified using atpB-1 as the forward primer and rbcL-1 as the reversed primer. Genetic variations were found in the length of the sequence and nucleotide divergences in the atpB-rbcL IGS region. The genetic distance between 822 fixed sites ranged from 0 to 0.61%. Eighteen of the 822 sites (99.27%) analyzed were invariable, six sites (0,73%) were variable consisting of 4 singleton variable sites and two parsimony informative sites, and twelve sites were gaps. The phylogenetic relationships generated by B. multangula based on the atpB-rbcL IGS sequence analysis indicated the genetic variation and divided it into two clades. However, the clustering pattern of B. multangula specimens resulting from molecular analysis based on atpB-rbcL IGS sequences did not show the geographic clustering grouping pattern.

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Section: The Phylogenetic Treementioning

confidence: 99%

Genetic variability and phylogenetic relationships of Begonia multangula based on atpB-rbcL non-coding spacer of cpDNA sequences

Warseno

Efendi²,

CHASANI

et al. 2022

Biodiversitas

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show abstract

“…Earlier, the genetic relationships and variability analysis among A. paniculata germplasms have been investigated using random amplified polymorphic DNA (RAPD) [22][23][24][25][26], isozyme [27], single-strand conformation polymorphism (SSCP) [28], amplified fragment length polymorphism (AFLP) and simple sequence repeats (SSR) markers [29], sequence-related amplified polymorphism (SRAP) and single nucleotide polymorphism (SNP) [30], start codon targeted (SCoT) and CAAT-box derived polymorphism (CBDP) markers [31], inter simple sequence repeats (ISSR) marker [32][33][34], and genomic SSR (g-SSR) [35]. For judicious exploitation of A. paniculata germplasm, comprehensive and robust DNA-based markers are required for an in-depth understanding of natural diversity and for developing strategies for its sustainable utilization.…”

Section: Introductionmentioning

confidence: 99%

De Novo Transcriptome Profiling for the Generation and Validation of Microsatellite Markers, Transcription Factors, and Database Development for Andrographis paniculata

Singh

Mahato

et al. 2023

IJMS

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Andrographis paniculata belongs to the family Acanthaceae and is known for its medicinal properties owing to the presence of unique constituents belonging to the lactones, diterpenoids, diterpene glycosides, flavonoids, and flavonoid glycosides groups of chemicals. Andrographolide, a major therapeutic constituent of A. paniculata, is extracted primarily from the leaves of this plant and exhibits antimicrobial and anti-inflammatory activities. Using 454 GS-FLX pyrosequencing, we have generated a whole transcriptome profile of entire leaves of A. paniculata. A total of 22,402 high-quality transcripts were generated, with an average transcript length and N50 of 884 bp and 1007 bp, respectively. Functional annotation revealed that 19,264 (86%) of the total transcripts showed significant similarity with the NCBI-Nr database and were successfully annotated. Out of the 19,264 BLAST hits, 17,623 transcripts were assigned GO terms and distributed into three major functional categories: molecular function (44.62%), biological processes (29.19%), and cellular component (26.18%) based on BLAST2GO. Transcription factor analysis showed 6669 transcripts, belonging to 57 different transcription factor families. Fifteen TF genes that belong to the NAC, MYB, and bHLH TF categories were validated by RT PCR amplification. In silico analysis of gene families involved in the synthesis of biochemical compounds having medicinal values, such as cytochrome p450, protein kinases, heat shock proteins, and transporters, was completed and a total of 102 different transcripts encoding enzymes involved in the biosynthesis of terpenoids were predicted. Out of these, 33 transcripts belonged to terpenoid backbone biosynthesis. This study also identified 4254 EST-SSRs from 3661 transcripts, representing 16.34% of the total transcripts. Fifty-three novel EST-SSR markers generated from our EST dataset were used to assess the genetic diversity among eighteen A. paniculata accessions. The genetic diversity analysis revealed two distinct sub-clusters and all accessions based on the genetic similarity index were distinct from each other. A database based on EST transcripts, EST-SSR markers, and transcription factors has been developed using data generated from the present study combined with available transcriptomic resources from a public database using Meta transcriptome analysis to make genomic resources available in one place to the researchers working on this medicinal plant.

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“…Parent plants with distant relationship will produce offspring plant with considerable segregation, making it easier to pick types with the required features (Amzeri et al 2011). Morphological and molecular characteristics can be used to determine genetic information and kinship (Govindaraj et al 2015;Arif et al 2020;Uslan and Pharmawati 2020). However, physical features have a shortcoming in identifying genetic variability since they are frequently impacted by the environment (Govindaraj et al 2015).…”

Section: Introductionmentioning

confidence: 99%

Genetic diversity of eight maize (Zea mays) cultivars from East Nusa Tenggara (Indonesia) based on inter simple sequence repeat markers

YANI

CHASANI²,

Daryono³

2022

Biodiversitas

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Abstract. Yani A, Chasani AR, Daryono BS. 2022. Genetic diversity of eight maize Zea mays L. cultivars from East Nusa Tenggara based on inter simple sequence repeat markers. Biodiversitas 23: 4124-4130. East Nusa Tenggara (NTT) is one of Indonesia's island that has many local maize cultivars. However, the existence of this local corn is threatened by the presence of high-yielding maize seeds. Therefore, characterization of local maize cultivars using molecular marker is needed to conserve the germplasm. This study aims to determine the genetic diversity of local maize cultivars (Zea maysL.) from East Nusa Tenggara based on ISSR markers. This research used eight local maize cultivars (Watar Ohaq, Watar Puluq, Wata Bura, Wata Kuma, Wata Bunga, Pena Muti, Boti Pulut, and Latun Wara). Young leaves of maize were used for DNA isolation. Total genomic DNA was isolated using Genomic DNA Mini Kit for Plant (Geneaid). DNA was then amplified using 5 ISSR molecular markers (ISSR-807, ISSR-808, UBC-809, UBC-811, UBC-834). DNA band profiles were scored based on the presence or absence of bands. Genetic variability was analyzed based on the UPGMA method using the MVSP ver application. 3.1. Local maize from NTT has high genetic diversity (similarity index between 0.29-0.65). Local maize cultivars were separated into two main clusters at a similarity index of 0.43 and the grouping pattern was not influenced by the geographic location of local maize origin.

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GENETIC DIVERSITY OF GREEN CHIRETA (Andrographis paniculata (Burm.f.) Wall. Ex Nees.) FROM INDONESIA BASED ON ISSR AND RAPD MARKERS

Cited by 4 publications

References 24 publications

Genetic variability and phylogenetic relationships of Begonia multangula based on atpB-rbcL non-coding spacer of cpDNA sequences

Genetic variability and phylogenetic relationships of Begonia multangula based on atpB-rbcL non-coding spacer of cpDNA sequences

De Novo Transcriptome Profiling for the Generation and Validation of Microsatellite Markers, Transcription Factors, and Database Development for Andrographis paniculata

Genetic diversity of eight maize (Zea mays) cultivars from East Nusa Tenggara (Indonesia) based on inter simple sequence repeat markers

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