Integration of advanced technologies for plant variety and cultivar identification

Azizi, Mohammad Malek Faizal; Lau, Han Yih; Bakar, Norliza Abu

doi:10.1007/s12038-021-00214-x

Cited by 18 publications

(13 citation statements)

References 149 publications

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“…However, SNP marker validation entails labor-intensive and costly 12 . Furthermore, SNP genotyping analysis of one sample at a time is extremely expensive and time-consuming 13 . Moreover, SNPs are less polymorphic than other molecular markers because of their biallelic nature 13 .…”

Section: Introductionmentioning

confidence: 99%

“…Furthermore, SNP genotyping analysis of one sample at a time is extremely expensive and time-consuming 13 . Moreover, SNPs are less polymorphic than other molecular markers because of their biallelic nature 13 . The other existing DNA markers technology, such as simple sequence repeats (SSR) 14 – 16 , inter-simple sequence repeat (ISSR) 17 , 18 , and random amplified polymorphic DNA (RAPD) markers 19 , 20 have been deployed in the identification of selected durian varieties.…”

Section: Introductionmentioning

confidence: 99%

“…DNA markers are widely utilized in practical agriculture monitoring, mostly due to their reliability, stability, reproducibility, efficiency, and cost-effectiveness. In 2018, the simple sequence repeats (SSR) marker was employed as an alternative technique to study genetic variation among Durian varieties in Malaysia owing to its co-dominant inheritance, multi-allelic nature, and high reproducibility compared to other markers 13 , 16 . However, the development process of SSR marker is quite lengthy and expensive, and throughput is low due to automation and output data management limitations 21 .Though RAPD and ISSR markers are a suitable alternative to provide useful information for the identification of plant variety and cultivar, general genetic diversity assessment, population genetic structure and plant protection, however, the dominant character of these markers considers them inappropriate for DNA fingerprinting and genetic variation analysis 22 .…”

Section: Introductionmentioning

confidence: 99%

“…Notably, the information derived from dominant genetic markers is less informative than that derived from co-dominant genetic markers, as codominant inheritance of markers can differentiate between homozygous and heterozygous states based on the generated alleles but not dominant inheritance of markers. Furthermore, some dominant genetic markers are known to suffer from poor reproducibility 13 , 23 , raising concerns about the feasibility and reliability of using dominant genetic markers for downstream applications.…”

Section: Introductionmentioning

confidence: 99%

“…The selection of DNA probe is based on DNA barcoding for plants technique, wherein genes encoding a mitochondrial cytochrome oxidase (COI, cox I) subunit were extensively employed 25 , 26 . The development of the DNA barcoding technique allows for high rapididentification of plant varieties and cultivars efficiently 13 . The chloroplast genome in plants is considered a potential candidate for barcoding genes due to conserved gene order, high copy number and simple amplification by PCR 13 , 27 .…”

Section: Introductionmentioning

confidence: 99%

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An electrochemical biosensor for the rapid genetic identification of Musang King durian

Azizi

Romeli

Razali

et al. 2022

Sci Rep

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More than 200 different cultivars of durian exist worldwide but Durio zibethinus or Musang King (MK) is the most premium and prized durian fruit among the recommended varieties. Early identification of this premium variety is critical to protect from non-authentic MK durian cultivars. However, the MK variety's morphological traits are nearly identical to other varieties. Currently, the identification of durian varieties is mostly performed via evaluation of leaf shape, fruit shape, aroma, taste and seed shape and this requires trained personnel for the morphology observation. To enable the rapid identification of the MK variety, PCR amplification of ten durian varieties using six gene candidates from the chloroplast genome was first performed to obtain DNA probes that were specific to the MK durian variety. PCR amplification of ten durian varieties using primers designed confirmed that the nadhA gene sequence showed an obvious difference in the MK variety from other durian varieties. The unique sequence of MK was used as a DNA probe to develop an electrochemical biosensor for the direct identification of the MK durian variety. The electrochemical biosensor was based on the hybridization response of the immobilized DNA probe with the target DNA from the MK variety and was monitored via differential pulse voltammetry technique. Under optimal conditions, the DNA electrochemical biosensor showed a low detection limit at 10% of MK genomic DNA concentration with a wide linear calibration range of 0.05–1.5 µM (R2 = 0.9891) and RSD value of 3.77% (n = 3). The results of the developed DNA biosensor provide high promise for the development of portable sensors employed in the determination of MK variety in the field.

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Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 3 more Smart Citations

An electrochemical biosensor for the rapid genetic identification of Musang King durian

Azizi

Romeli

Razali

et al. 2022

Sci Rep

Self Cite

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DBALM: A novel method for identifying ornamental flowering plants based on DNA barcodes–leaf morphology

Shen,

Bai,

et al. 2023

Ecology and Evolution

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Whereas the presence of flowers on ornamental flowering plants is essential for their identification via traditional methods, ornamental flowering plants cannot be reliably identified in non-flowering stages likewise. Here, DBALM (DNA Barcodes-Leaf Morphology), a new approach that combines DNA barcoding data with micromorphological features of the leaf epidermis and that is not limited by the flowering stage, was used to identify 16 evergreen rhododendron cultivars. First, the sequences of DNA barcodes, ITS, matK, psbA-trnH, and rbcL, were obtained from the DNA of leaves.Phylogenetic analysis was conducted to clarify the groupings among all the samples based on the four markers. Then, microscopic features of the leaf epidermis were used to further distinguish individuals from the same clade. DNA barcoding permitted the 16 cultivars to be divided into eight groups. The microscopic features of the leaf epidermis permitted cultivars within the same clade to be distinguished. The matK + psbA-trnH combination was the most effective barcode combination in this study. In addition, the new primer matK-Rh_R was designed, and it increased the amplification rate of evergreen rhododendron cultivars to 100%. In sum, DBALM was capable of accurately identifying the 16 evergreen rhododendron cultivars using data collected from a single leaf in the vegetative growth stage. This method can greatly facilitate the identification and breeding of ornamental flowering plants.

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Phenotypic variation seems not to be associated with the genetic profile in Zygopetalum (Orchidaceae): a case study of a high-elevation rocky complex

Gomes,

Lopes,

de Matos

et al. 2024

Mol Biol Rep

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Hybridization associated with polyploidy studies is rare in the tropics. The genus Zygopetalum (Orchidaceae) was here investigated as a case study of Neotropical plants. In the Ibitipoca State Park (ISP), Southeast, Brazil, occurring in outcrops of campos rupestres, it was observed a wide phenotypic variation involving Z. maculatum and Z. triste; individuals with intermediate colors and forms between the species are commonly identi ed. Chromosomal analysis and DNA amount showed a uniform population. Regardless of the aspects related to the color and shape of oral structures, all individuals presented 2n = 96 chromosomes and an average of 14.05pg of DNA. Irregularities in meiosis associated with chromosome number and C value suggest the occurrence of polyploidy. The genetic distance estimated using ISSR molecular markers revealed the existence of genetic variability, not related to morphological clusters. Morphometric measurements of the ower pieces revealed that Z. maculatum has greater variation than Z. triste but without a de ned circumscription. The observed variation can be explained by the polyploid and phenotypic plasticity resulting from the interaction of the genotypes with the heterogeneous environments observed in the study area. The data together contributed to the understanding of evolutionary processes and the origin of diversity in tropical regions. Key messageVariation in phenotypic and genetic pro les in Zygopetalum can be explained by the polyploid and phenotypic plasticity.

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Integration of advanced technologies for plant variety and cultivar identification

Cited by 18 publications

References 149 publications

An electrochemical biosensor for the rapid genetic identification of Musang King durian

An electrochemical biosensor for the rapid genetic identification of Musang King durian

DBALM: A novel method for identifying ornamental flowering plants based on DNA barcodes–leaf morphology

Phenotypic variation seems not to be associated with the genetic profile in Zygopetalum (Orchidaceae): a case study of a high-elevation rocky complex

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