Detection of somaclonal variations in tissue cultured date palm (Phoenix dactylifera L.) using transposable element-based markers

Mirani, Abdul Aziz; Teo, Chee How; Markhand, Ghulam Sarwar; Abul-Soad, Adel Ahmed; Harikrishna, Jennifer Ann

doi:10.1007/s11240-020-01772-y

Cited by 27 publications

(16 citation statements)

References 50 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The LTR-retrotransposonbased markers were effectively used to identify heterospecific alleles in interspecific BC1 hybrids of Iris fulva and I. brevicaulis (Bouck et al 2005). Other investigations have found that IRAP markers may be utilized to detect novel recombinants due to somaclonal variation produced from tissue culture (Lightbourn et al 2007;Teo et al 2005;Mirani et al 2020). In conclusion, our current study demonstrates that retrotransposon basedmarker can offer an effective approach for evaluating the segregation in the F2 population of intercross hybrids in the mung bean.…”

Section: Cluster Analysis Of the Irap Marker Systemsupporting

confidence: 51%

“…Therefore, the IRAP marker system developed can be applied as MAS in interspecific mung bean breeding projects. Another study revealed that IRAP is a substantive marker for plant genotyping and identification of hybrid plants (Basirnia et al 2016;Ghonaim et al 2020;Li et al 2020;Mirani et al 2020).…”

Section: Cluster Analysis Of the Irap Marker Systemmentioning

confidence: 99%

“…The Inter-Retrotransposon Amplified Polymorphism (IRAP) marker amplified the LTRs of two retrotransposons (Kalendar and Schulman 2006). This marker system is commonly used in plant genotyping, including sunflower (Basirnia et al 2016), potato (Sharma and Nandineni 2014), papaya (Rashid et al 2014), date palm (Mirani et al 2020), bamboo (Li et al 2020), and Bletilla Chinese herb (Guo et al 2018). In addition, molecular marker based retrotransposon demonstrated an extensive application in plant genetic mapping (Liang et al 2016;Monden et al 2015;Rey-Baños et al 2017), genetic diversity (Mirani et al 2020;Sormin et al 2021;Vuorinen et al 2018), cultivar identification (Kim et al 2012), and the evolutionary studies (Konovalov et al 2010).…”

Section: Introductionmentioning

confidence: 99%

See 2 more Smart Citations

Analysis of genetic variability in F2 interspecific hybrids of mung bean (Vigna radiata) using inter-retrotransposon amplified polymorphism marker system

et al. 2021

Self Cite

View full text Add to dashboard Cite

Abstract. Fatmawati Y, Setiawan AB, Purwantoro A, Respatie DW, Teo CH. 2021. Analysis of genetic variability in F2 interspecific hybrids of mung bean (Vigna radiata) using inter-retrotransposon amplified polymorphism marker system. Biodiversitas 22: 4880-4889. Mung bean (Vigna radiata L. Wilczek) categorized as one of the pivotal annual crops of Vigna genera is commonly cultivated in rotation with the cereal crops during the drought season. Conversely, to ameliorate its stunted productivity, the interspecific hybridization technique has been introduced between the mung bean and the common bean to promote genetic improvement with the breeding projects in Indonesia. However, since mung bean is a self-pollinated crop and has a narrow genetic base, the selection and improvement of a specific trait using marker-assisted selection is more challenging. Hence, a precautionary investigation is imperative to evaluate the progenies resulting from interspecific hybridization using an ideal marker. This study aimed to investigate the genetic variability of the F2 population of the interspecific mung bean hybrids using retrotransposon-based markers, particularly Inter-Retrotransposon Amplified Polymorphism (IRAP) markers. In this study, we identified retrotransposon from the mung bean genome and determined the Long Terminal Repeat (LTR) sequence using the LTR Finder. The IRAP primers were designed from a conserved region of the LTR sequence. One hundred of the F2 interspecific hybrids generated from the crossing between mung bean and common bean were successfully discriminated by IRAP markers. The IRAP marker showed high heterozygosity and moderate Polymorphic Information Content (PIC) values. The IRAP markers were able to detect genetic variability in the F2 progenies resulting from the interspecific hybridization. Cluster analysis showed that 100 of the F2 progenies were grouped into three clusters. This study demonstrated that retrotransposon-based markers can offer an effective approach for evaluating the segregation in the F2 population of intercross hybrids in the mung bean.

show abstract

Section: Cluster Analysis Of the Irap Marker Systemsupporting

confidence: 51%

Section: Cluster Analysis Of the Irap Marker Systemmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Analysis of genetic variability in F2 interspecific hybrids of mung bean (Vigna radiata) using inter-retrotransposon amplified polymorphism marker system

et al. 2021

Self Cite

View full text Add to dashboard Cite

show abstract

“…We also found other classes of repetitive elements, such as Class II TEs, to be poorly represented in palm genome sequences, collectively making up 1.87-3.37% of the four annotated assemblies. The most prevalent DNA transposon super-families were the hAT, Mutator, and Helitron elements, likewise being the most abundant in previous studies [74]. In particular, members of the hAT superfamily are found in many monocots, such as the Ac-Ds family in maize [75].…”

Section: Discussionmentioning

confidence: 79%

Genome-wide comparative analysis of transposable elements in Palmae genomes

Ibrahim

Al-Shomrani

Alharbi

et al. 2021

Front Biosci (Landmark Ed)

View full text Add to dashboard Cite

“…Plant Cell Technology recommends 0.5-1.0 ml/l PPM to minimise or reduce airborne contamination in the media (7). In the tissue culture process, the DNA transposons, retrotransposons and transpositions can be activated due to stresses; thus, these elements can be used as markers for genomic variations (8). Somaclonal variation is a predominant phenomenon in plant tissue cultured organisms, and it plays a significant role in research like plant improvement by enabling the breeders to obtain plants tolerant to stresses viz.…”

Section: Introductionmentioning

confidence: 99%

In vitro propagation and plant regeneration of Torenia crustacea (L.) Charm. & Schltdl; an important ethnic medicinal plant

Baro

Das²

2022

Plant Sci. Today

View full text Add to dashboard Cite

Torenia crustacea (L.) Charm. & Schltdl is an important medicinal herb used in India, Indonesia and Malaysia. This herb is used by Bodo tribes in the Bodoland Territorial Region, Assam to treat various diseases like diabetes. The present experiment developed an efficient protocol for in vitro mass propagation technique for Torenia crustacea species using its nodal explants. For tissue culture, the rapidly growing nodal explants of Torenia crustacea were used. Effective explant surface sterilisation was found at 15 min. of treatment with 2% sodium hypochlorite resulting in a maximum explant survival rate and a lower rate of explant contamination after 21 days of explant culture. Media containing full strength MS (Murashige and Skoog's) + BAP (6- Benzyl amino purine) (1 mg/l) were found most effective for the establishment of the explant. The highest shoot proliferation and multiplication were observed in the media containing full strength MS + BAP (1 mg/l) + NAA (Naphthalene acetic acid) (0.2 mg/l); in this combination, an average of 16 shoots formed per nodal explant. The rooting of explants was observed highest in MS media along with 0.4 mg/l concentration of NAA and 1 mg/l BA. The in vitro multiplied shoots were grown in plastic pots containing vermicompost fertiliser and soil mixture and successfully grown in the open field condition.

show abstract

Detection of somaclonal variations in tissue cultured date palm (Phoenix dactylifera L.) using transposable element-based markers

Cited by 27 publications

References 50 publications

Analysis of genetic variability in F2 interspecific hybrids of mung bean (Vigna radiata) using inter-retrotransposon amplified polymorphism marker system

Analysis of genetic variability in F2 interspecific hybrids of mung bean (Vigna radiata) using inter-retrotransposon amplified polymorphism marker system

Genome-wide comparative analysis of transposable elements in Palmae genomes

In vitro propagation and plant regeneration of Torenia crustacea (L.) Charm. & Schltdl; an important ethnic medicinal plant

Contact Info

Product

Resources

About