Molecular distinction of C×R hybrid (Coffea congensis×Coffea canephora) from morphologically resembling male parent using rbcL and matK gene sequences

Nandhini, R.M. Bharatha; Rahul, R Nair; Sethuraman, Thilaga; Rao, N. Surya Prakash; Ganesh, D.

doi:10.1016/j.sajb.2013.08.011

Cited by 12 publications

(4 citation statements)

References 31 publications

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“…Plant materials were collected from three different authentic sources through Sahaja samrudha, DHAN Foundation, and Gandhi Krishi Vignan Kendra, Bangalore, India (Table 1) Genomic DNA was extracted according to the protocol of [15] with a slight modification in extraction buffer by the addition of 0.5% SDS.…”

Section: Plant Materials and Dna Isolationmentioning

confidence: 99%

Molecular marker for characterization of traditional and hybrid derivatives of Eleusine coracana (L.) using ISSR marker

Venkatesan

Ramu

Sethuraman

et al. 2021

Journal of Genetic Engineering and Biotechnology

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Background Finger millet is the most important food grain in the world for its nutritional benefits. Finger millet is genetically and geographically diverse and widely spread in the African and Asian sub-continent. Therefore, the present study was undertaken to analyze the genetic diversity using ISSR genetic markers using 15 ISSR primers. Results About 23 genotypes of widely cultivated finger millet cultivars of economically important ones were characterized and the ISSR markers were critically analyzed for their performance with parameters such as polymorphic information content (PIC), effective multiplex ratio (EMR), marker index (MI), and resolving power (RP). In this study, 175 loci were scored across the 23 cultivars of finger millet, and out of these 173 loci (98%) were polymorphic, revealing the suitability of these loci for genetic diversity analysis with ISSR marker. The average number of polymorphic loci per primer was 11.50 with varying sizes from 100 bp to 2500 bp. ISSR primers that showed higher polymorphism were found to have higher EMR and MI values up to 15.30 and 13.44, respectively. Conclusion High degree of polymorphism supported with distinct differences of all the marker parameters revealed the suitability of ISSR markers for determining the genotypic differences based on ISSR markers among the 23 genotypes of finger millet. The possible application of the ISSR marker in the conservation and management of finger millet genetic resources is discussed.

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Section: Plant Materials and Dna Isolationmentioning

confidence: 99%

Molecular marker for characterization of traditional and hybrid derivatives of Eleusine coracana (L.) using ISSR marker

Venkatesan

Ramu

Sethuraman

et al. 2021

Journal of Genetic Engineering and Biotechnology

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“…Therefore, most researchers used cp genes or cp whole genome sequences to identify maternal parents and analyze the genetic relationship. For example, ( Nandhini et al., 2013 ) identified interspecific hybrid Coffea congensis × Coffea canephora and its parents based on the SNPs present in the rbc L and mat K. Similarly, ( Khew and Chia, 2011 ) identified the female parent of orchid hybrid Vanda Miss Joaquim using the mat K. Further, ( Uchoi et al., 2016 ) analyzed the phylogenetic relationship of 23 Citrus genotypes using rbc L and mat K genes. Chen et al.…”

Section: Discussionmentioning

confidence: 99%

Molecular identification of Bambusa changningensis is the natural bamboo hybrid of B. rigida × Dendrocalamus farinosus

Zhuo,

Vasupalli,

Wang

et al. 2023

Front. Plant Sci.

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Bamboo is one of the fastest-growing plants commonly used in food, fibre, paper, biofuel, ornamental and medicinal industries. Natural hybridization in bamboo is rare due to its long vegetative period followed by gregarious flowering and death of the entire population. In the current study, a new bamboo species, Bambusa changningensis, shows intermediate characteristics of Dendrocalamus farinosus and B. rigida morphologically, but it is unknown whether B. changningensis is a natural hybrid. Moreover, B. changningensis has been identified as a superior variety of Sichuan Province with high pulping yield, fibre length and width. Therefore, we analyzed the morphological characteristics, DNA markers, DNA barcoding and chloroplast genomes to identify the hybrid origin of B. changningensis and possible maternal parent. We have developed the transcriptomic data for B. changningensis and mined the SSR loci. The putative parental lines and hybrid were screened for 64 SSR makers and identified that SSR14, SSR28, SSR31 and SSR34 markers showed both alleles of the parental species in B. changningensis, proving heterozygosity. Sequencing nuclear gene GBSSI partial regions and phylogenetic analysis also confirm the hybrid nature of B. changningensis. Further, we have generated the complete chloroplast genome sequence (139505 bp) of B. changningensis. By analyzing the cp genomes of both parents and B. changningensis, we identified that B. rigida might be the female parent. In conclusion, our study identified that B. changningensis is a natural hybrid, providing evidence for bamboo’s natural hybridization. This is the first report on confirming a natural bamboo hybrid and its parents through SSR and chloroplast genome sequence.

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“…Genomic DNA was extracted from frozen leaf tissues of P. emblica by Cetyl Trimethyl Ammonium Bromide (CTAB) method with minor modification [18]. About 0.1 g of leaf tissue was ground into fine powder under liquid N 2 using sterile/chilled mortar and pestle.…”

Section: Methodsmentioning

confidence: 99%

RAPD markers for screening shoot gall maker ( Betousa stylophora Swinhoe) tolerant genotypes of amla ( Phyllanthus emblica L.)

Sethuraman

Nair²,

Kannan

et al. 2017

Journal of Genetic Engineering and Biotechnology

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Phyllanthus emblica Linn. is the most important medicinally useful tree crop in Asian Subcontinent and is severely infested by Betousa stylophora Swinhoe, known as shoot gall maker (SGM). This pest tunnels the shoots of seedlings and actively growing branches of trees and develops gall, leading to stunted growth, unusual branching and death of actively growing shoots. Our study revealed that trees possessing smooth bark were free from the attack of this pest than those with rough bark surface. Unfortunately, this character is not detectable either at seedling stage or during early growth of trees in the orchard. RAPD genetic fingerprinting of trees possessing smooth and rough bark revealed distinguishable and highly reproducible DNA banding pattern between the two genotypes. Of the 20 RAPD primers tested, five of them produced distinguishable RAPD bands between rough and smooth barked genotypes of P. emblica. Trees with smooth bark produced five unique RAPD bands with molecular weight ranging from 350 bp to 1500 bp and those with rough bark produced six RAPD bands (350 bp–650 bp) to utilize these DNA bands as potential DNA marker for screening tolerant genotypes of this crop against SGM. The utility of this finding in genetic improvement of this tree crop against SGM is discussed.

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Molecular distinction of C×R hybrid (Coffea congensis×Coffea canephora) from morphologically resembling male parent using rbcL and matK gene sequences

Cited by 12 publications

References 31 publications

Molecular marker for characterization of traditional and hybrid derivatives of Eleusine coracana (L.) using ISSR marker

Molecular marker for characterization of traditional and hybrid derivatives of Eleusine coracana (L.) using ISSR marker

Molecular identification of Bambusa changningensis is the natural bamboo hybrid of B. rigida × Dendrocalamus farinosus

RAPD markers for screening shoot gall maker ( Betousa stylophora Swinhoe) tolerant genotypes of amla ( Phyllanthus emblica L.)

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