SSR markers development and their application in genetic diversity evaluation of garlic (Allium sativum) germplasm

Li, Xiaxia; Qiao, Liang; Chen, Birong; Zheng, Yujie; Zhi, Chengchen; Zhang, Siyu; Pan, Yupeng; Cheng, Zhihui

doi:10.1016/j.pld.2021.08.001

Cited by 44 publications

(26 citation statements)

References 45 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…The amplified PCR products were separated by vertical electrophoresis on 8% polyacrylamide gel in 1 × TBE buffer at a constant 180 V for 1 h, visualized with silver staining, and photographed with a digital camera. Twenty-nine developed SSR primers ( Li et al, 2021 ) were selected. The tests were repeated twice to ensure reliability and repeatability.…”

Section: Methodsmentioning

confidence: 99%

In vitro Induction and Phenotypic Variations of Autotetraploid Garlic (Allium sativum L.) With Dwarfism

et al. 2022

Self Cite

View full text Add to dashboard Cite

Garlic (Allium sativum L.) is a compelling horticultural crop with high culinary and therapeutic values. Commercial garlic varieties are male-sterile and propagated asexually from individual cloves or bulbils. Consequently, its main breeding strategy has been confined to the time-consuming and inefficient selection approach from the existing germplasm. Polyploidy, meanwhile, plays a prominent role in conferring plants various changes in morphological, physiological, and ecological properties. Artificial polyploidy induction has gained pivotal attention to generate new genotype for further crop improvement as a mutational breeding method. In our study, efficient and reliable in vitro induction protocols of autotetraploid garlic were established by applying different antimitotic agents based on high-frequency direct shoot organogenesis initiated from inflorescence explant. The explants were cultured on solid medium containing various concentrations of colchicine or oryzalin for different duration days. Afterward, the ploidy levels of regenerated plantlets with stable and distinguished characters were confirmed by flow cytometry and chromosome counting. The colchicine concentration at 0.2% (w/v) combined with culture duration for 20 days was most efficient (the autotetraploid induction rate was 21.8%) compared to the induction rate of 4.3% using oryzalin at 60 μmol L–1 for 20 days. No polymorphic bands were detected by simple sequence repeat analysis between tetraploid and diploid plantlets. The tetraploids exhibited a stable and remarkable dwarfness effect rarely reported in artificial polyploidization among wide range of phenotypic variations. There are both morphological and cytological changes including extremely reduced plant height, thickening and broadening of leaves, disappearance of pseudostem, density reduction, and augmented width of stomatal. Furthermore, the level of phytohormones, including, indole propionic acid, gibberellin, brassinolide, zeatin, dihydrozeatin, and methyl jasmonate, was significantly lower in tetraploids than those in diploid controls, except indole acetic acid and abscisic acid, which could partly explain the dwarfness in hormonal regulation aspect. Moreover, as the typical secondary metabolites of garlic, organosulfur compounds including allicin, diallyl disulfide, and diallyl trisulfide accumulated a higher content significantly in tetraploids. The obtained dwarf genotype of autotetraploid garlic could bring new perspectives for the artificial polyploids breeding and be implemented as a new germplasm to facilitate investigation into whole-genome doubling consequences.

show abstract

Section: Methodsmentioning

confidence: 99%

In vitro Induction and Phenotypic Variations of Autotetraploid Garlic (Allium sativum L.) With Dwarfism

et al. 2022

Self Cite

View full text Add to dashboard Cite

show abstract

“…The PIC values similar to this study were also reported by Wu et al (2014) for Chinese sesame. Markers that have PIC values of 0.5 or above are highly informative, indicative of high polymorphism and are used in genetic studies (Li et al, 2021). A pair of genotypes that have a higher PIC value is more dissimilar than a pair with a lower PIC.…”

Section: Discussionmentioning

confidence: 99%

Microsatellite marker assisted molecular and morpho-physiological genetic diversity assessment in 38 genotypes of sesame (Sesamum indicum L.)

Emon

Sakib

Khatun

et al. 2023

View full text Add to dashboard Cite

Identification of genetic diversity and their relationships among breeding materials is crucial in crop improvement strategies. In this study, 38 sesame genotypes were characterized for their genetic diversity. The results revealed significant variations among various traits such as plant height, maturity, capsule plant-1 and seeds capsule-1. The number of capsule plant-1 showed significant positive correlation with seeds capsule-1. The highest heritability was found for the numbers of capsules plant-1 (98.67%). The 38 genotypes were separated into six distinct clusters. Comparison within the populations of the cluster IV and those of cluster VI had the highest capsules plant-1, seeds capsule-1 with enormous genetic diversity. For molecular characterization, 7 microsatellite markers and 5 SSR primers with polymorphism were finally chosen for genetic diversity analysis. Altogether, 19 alleles were identified among the 38 genotypes, and the average number of alleles per locus was 3.80. The lowest and the highest numbers of alleles were 3 and 5, respectively. The polymorphism information content (PIC) ranged from 0.3201 to 0.5934 and SI-ssr30 showed to be highest at 0.5934. The UPGMA based clustering depicted a significant variation at molecular level among the sesame genotypes, having a coefficient of similarity between 0.29 and 1.00. The present study confirmed that extensive genetic diversity existed among the sesame genotypes and valuable agronomic traits may result in the development of high yielding genotypes.

show abstract

“…Prior to genome sequencing, numerous researcher groups reported the development and use of various types of molecular markers, from isozymes [ 37 , 38 ] to DNA-based markers, including RAPD (random amplified polymorphic DNA) [ 38 ], SSR (simple sequence repeats, also known as microsatellites) [ 39 , 40 , 41 , 42 , 43 , 44 , 45 , 46 , 47 , 48 , 49 ], ISSR (inter simple sequence repeats) [ 44 , 50 ], SRAP (sequence-related amplified polymorphism) [ 51 ] and AFLP (amplified fragment length polymorphisms) markers. These markers have been utilized for various purposes, such as studying the phylogenetic relationships between Allium species, characterizing the intraspecific diversity in garlic and related species and assessing the relationships among the accessions of germplasm collections [ 39 ].…”

Section: The Genetics and Genomics Of Garlic: State-of-the-artmentioning

confidence: 99%

“…With the availability of the garlic genome sequence, the genomic location of these markers can now be determined, which has confirmed the non-allelic character of many randomly selected SSR sequences. Therefore, markers based on expressed sequences, such as ESTs (expressed sequence tags) or assembled RNA-seq reads, are expected to be more reproducible and informative [ 46 , 47 , 48 , 49 , 53 ].…”

Section: The Genetics and Genomics Of Garlic: State-of-the-artmentioning

confidence: 99%

“…Breeding strategies in garlic have been primarily oriented toward the improvement in bulb yield and quality. Continuous variation has been reported for traits such as bulb size (height, width and weight), number of cloves and number of days from sowing to harvest [ 49 ]. Not unexpectedly, a significant correlation was found between bulb size components and number of cloves.…”

Section: Target Traits For Garlic Breedingmentioning

confidence: 99%

See 1 more Smart Citation

Turning Garlic into a Modern Crop: State of the Art and Perspectives

Parreño

Rodríguez-Alcocer

Martínez-Guardiola

et al. 2023

Plants

View full text Add to dashboard Cite

Garlic is cultivated worldwide for the value of its bulbs, but its cultivation is challenged by the infertility of commercial cultivars and the accumulation of pathogens over time, which occurs as a consequence of vegetative (clonal) propagation. In this review, we summarize the state of the art of garlic genetics and genomics, highlighting recent developments that will lead to its development as a modern crop, including the restoration of sexual reproduction in some garlic strains. The set of tools available to the breeder currently includes a chromosome-scale assembly of the garlic genome and multiple transcriptome assemblies that are furthering our understanding of the molecular processes underlying important traits like the infertility, the induction of flowering and bulbing, the organoleptic properties and resistance to various pathogens.

show abstract

SSR markers development and their application in genetic diversity evaluation of garlic (Allium sativum) germplasm

Cited by 44 publications

References 45 publications

In vitro Induction and Phenotypic Variations of Autotetraploid Garlic (Allium sativum L.) With Dwarfism

In vitro Induction and Phenotypic Variations of Autotetraploid Garlic (Allium sativum L.) With Dwarfism

Microsatellite marker assisted molecular and morpho-physiological genetic diversity assessment in 38 genotypes of sesame (Sesamum indicum L.)

Turning Garlic into a Modern Crop: State of the Art and Perspectives

Contact Info

Product

Resources

About