scholarly journals An assessment on intraspecific transferability of SSR markers on fennel (Foeniculum vulgare Mill.) varieties.

2020 ◽  
Vol 80 (04) ◽  
Author(s):  
K. Ram Krishna ◽  
Naresh Parashar ◽  
Dhirendra Singh ◽  
G. K. Mittal
Keyword(s):  
Ssr Markers ◽  
Foeniculum Vulgare ◽  
Improved Varieties

The amplification potential of 27 SSR primer pairs originally reported on exotic fennel (Foeniculum vulgare Mill.) was studied on Indian fennel. Only 13 primer pairs developed amplicons (only one amplicon per primer pair) of sizes ranging from 100 to 450 bp. To determine their polymorphic potential, a set of 20 diverse fennel germplasm lines was used. Four primers exhibiting polymorphism, did segregate the 20 diverse lines in 9 clusters. However, these primer pairs did not differentiate between 17 improved varieties of fennel.

scholarly journals Evaluation of Cross-Species Transferability of SSR Markers in Foeniculum vulgare

Plants ◽  
2020 ◽  
Vol 9 (2) ◽  
pp. 175 ◽  
Author(s):  
Domenico Aiello ◽  
Nicoletta Ferradini ◽  
Lorenzo Torelli ◽  
Chiara Volpi ◽  
Joep Lambalk ◽  
...  
Keyword(s):  
Ssr Markers ◽  
Genomic Information ◽  
Foeniculum Vulgare ◽  
Breeding Programs ◽  
Breeding Lines ◽  
Transcriptomic Data ◽  
Genomic Ssr ◽  
Ssr Loci ◽  
Ssr Transferability ◽  
Simple Sequence

Fennel (Foeniculum vulgare) is a species belonging to the Apiaceae family, well known for its nutritional and pharmacological properties. Despite the economic and agricultural relevance, its genomic and transcriptomic data remain poor. Microsatellites—also known as simple sequence repeats (SSRs)—are codominant markers widely used to perform cross-amplification tests starting from markers developed in related species. SSRs represent a powerful tool, especially for those species lacking genomic information. In this study, a set of primers previously designed in Daucus carota for polymorphic SSR loci was tested in commercial varieties and breeding lines of fennel in order to: (i) test their cross-genera transferability, (ii) look at their efficiency in assessing genetic diversity, and (iii) identify their usefulness for marker-assisted selection (MAS) in breeding programs. Thirty-nine SSR markers from carrot were selected and tested for their transferability score, and only 23% of them resulted suitable for fennel. The low rate of SSR transferability between the two species evidences the difficulties of the use of genomic SSR in cross-genera transferability.

scholarly journals SSR MARKERS REVEALED GENETIC DIVERGENCE OF RICE BROWN PLANTHOPPER POPULATIONS MAINTAINED ON TWO SETS OF DIFFERENTIAL HOST VARIETIES

2021 ◽  
Vol 22 (2) ◽  
pp. 77
Author(s):  
Chaerani Chaerani ◽  
Siti Yuriyah ◽  
Ahmad Dadang ◽  
Kusumawaty Kusumanegara ◽  
Diani Damayanti ◽  
...  
Keyword(s):  
Ssr Markers ◽  
Brown Planthopper ◽  
Genetic Parameter ◽  
Adaptation Period ◽  
Resistance Screening ◽  
Differential Host ◽  
Improved Varieties ◽  
Ssr Analysis ◽  
Parameter Values ◽  
Previous Assumption

<p>Resistance screening of promising rice lines in Indonesia requires the use of brown planthopper (BPH) biotypes 1, 2, and 3. Three BPH populations have been raised as biotypes 1, 2, and 3 on differential rice host of improved varieties Pelita I-1 (no <em>Bph </em>gene), IR26 (<em>Bph1</em>), and IR42 (<em>bph2</em>), respectively. Three alternative populations have also been developed on the respective traditional varieties TN1 (no <em>Bph </em>gene), Mudgo (<em>Bph1</em>), and ASD7 (<em>bph2</em>). Although these populations displayed two virulent patterns other than biotype 1 to 3 phenotypes, they were expected to be discriminated into two virulence groups by SSR analysis. The study aimed to investigate the level of genetic variation among the six BPH populations using SSR markers and to relate it with the observed virulence patterns. Genotyping of 30 females with 29 polymorphic SSR markers revealed higher genetic parameter values in populations reared on improved varieties than those on traditional varieties. This difference was marked as two population clusters in PCoA plots corresponding to the host variety type, in contrast to the previous assumption that clustering would be based on virulence patterns. The presence of individuals with unwanted virulence allele, either resulting from contamination during the long period of rearing or lack of host adaptation period, is suspected. The result of this study indicates that the six populations are not suitable for resistance screening. Virulence selection must be performed until they attain biotype 1 to 3 phenotypes which can be genetically separated by DNA markers.</p>

scholarly journals Genetic Diversity Analysis and Development of DNA Fingerprints of 20 Indonesian Local Chili Pepper Varieties Based on SSR Markers

2020 ◽  
Vol 16 (2) ◽  
pp. 45
Author(s):  
Rerenstradika Tizar Terryana ◽  
Nadia Della Savitri Ayu Ningrum ◽  
Kristianto Nugroho ◽  
Darmawan Saptadi ◽  
Helmi Kurniawan ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Dna Fingerprinting ◽  
Ssr Markers ◽  
Ssr Marker ◽  
Chili Pepper ◽  
Polymorphism Analysis ◽  
Diversity Analysis ◽  
Local Varieties ◽  
Genetic Diversity Analysis ◽  
Improved Varieties

<p>Chili pepper is one of the most valuable<em> </em>horticultural crops, widely cultivated in Indonesia. Analysis of its genetic diversity is needed to develop successful breeding programs of local varieties. Simple sequence repeat (SSR), a robust molecular marker used for genetic diversity analysis in plant species, offers potential, reliable DNA fingerprinting method to assess genetic variation and varietal identification of chili pepper. Fifteen SSR markers were used in this study to analyze the genetic diversity and develop profiling identification of DNA fingerprint of local chili pepper varieties. Twenty local and two improved varieties of three chili pepper species, consisting of 3, 1, and 18 varieties of <em>Capsicum </em><em>frutescens</em>, <em>C. chinense</em>, and <em>C. annuum</em>, respectively, were assessed for their SSR polymorphism. A total of 87 alleles was obtained from the polymorphism analysis with high alleles variation (2–16 alleles) with average total allele of 5.8 and average polymorphism information content (PIC) of 0.59 (0.34–0.83). Clustering and Principle Coordinate Analyses (PCoA) classified the varieties into two groups with coefficient of similarity of 0.65 indicating their high genetic variability. Most local varieties belonged to the same cluster and separated from the two improved varieties. Based on PIC values and dendrogram with selected markers, five SSR markers, i.e. EPMS441, EPMS331, EPMS335, GPMS194, and CaSSRBio1.1, were identified as SSR marker set for DNA fingerprinting purposes. SSR marker set used in this study was successful in developing the varietal identity of local chili pepper varieties, as indicated by unique code of each variety.</p>

Comparative essential oil composition of fennel (Foeniculum vulgare Mill.) fruits collected during different three years

Planta Medica ◽  
2009 ◽  
Vol 75 (09) ◽  
Author(s):  
AC Aprotosoaie ◽  
V Floria ◽  
A Spac ◽  
A Miron ◽  
M Hancianu ◽  
...  
Keyword(s):  
Essential Oil ◽  
Essential Oil Composition ◽  
Oil Composition ◽  
Foeniculum Vulgare

Application of SSR Technique for the Identification of Markers Linked to Salinity Tolerance in Rice

2013 ◽  
Vol 19 (2) ◽  
pp. 57-65
Author(s):  
MH Kabir ◽  
MM Islam ◽  
SN Begum ◽  
AC Manidas
Keyword(s):  
Salt Tolerance ◽  
Ssr Markers ◽  
Salinity Tolerance ◽  
Seedling Stage ◽  
Phenotypic Screening ◽  
Salt Tolerant ◽  
Marker Assisted Breeding ◽  
Hydroponic System ◽  
Rice Landrace ◽  
Salt Susceptible

A cross was made between high yielding salt susceptible BINA variety (Binadhan-5) with salt tolerant rice landrace (Harkuch) to identify salt tolerant rice lines. Thirty six F3 rice lines of Binadhan-5 x Harkuch were tested for salinity tolerance at the seedling stage in hydroponic system using nutrient solution. In F3 population, six lines were found as salt tolerant and 10 lines were moderately tolerant based on phenotypic screening at the seedling stage. Twelve SSR markers were used for parental survey and among them three polymorphic SSR markers viz., OSR34, RM443 and RM169 were selected to evaluate 26 F3 rice lines for salt tolerance. With respect to marker OSR34, 15 lines were identified as salt tolerant, 9 lines were susceptible and 2 lines were heterozygous. While RM443 identified 3 tolerant, 14 susceptible and 9 heterozygous rice lines. Eight tolerant, 11 susceptible and 7 heterozygous lines were identified with the marker RM169. Thus the tested markers could be efficiently used for tagging salt tolerant genes in marker-assisted breeding programme.DOI: http://dx.doi.org/10.3329/pa.v19i2.16929 Progress. Agric. 19(2): 57 - 65, 2008

Genetic Diversity in Fennel (Foeniculum Vulgare Mill)

2012 ◽  
Vol 2 (8) ◽  
pp. 3-4 ◽  
Author(s):  
Mamta Sharma ◽  
◽  
Dr. R.S. Meena Dr. R.S. Meena
Keyword(s):  
Genetic Diversity ◽  
Foeniculum Vulgare

The SSR markers' potential utility for pepper (Capsicum annuumL.) DUS testing

2014 ◽  
Author(s):  
Junjiao Guan ◽  
Jianhua Zhang ◽  
Shenli Mao ◽  
Hui Zhang ◽  
Xiaohong Yang ◽  
...  
Keyword(s):  
Ssr Markers ◽  
Potential Utility ◽  
Dus Testing

Evaluation of antimicrobial potential of some spices from apiaceae sold in herbal shops

2019 ◽  
Author(s):  
Alev ONDER ◽  
Suna Sibel GURPINAR, Mujde ERYILMAZ ◽  
Bayram Kagan AKAY, Ahsen Sevde CINAR
Keyword(s):  
Antimicrobial Activity ◽  
Daucus Carota ◽  
Antimicrobial Effect ◽  
Coriandrum Sativum ◽  
Apium Graveolens ◽  
Dilution Method ◽  
Anethum Graveolens ◽  
Foeniculum Vulgare ◽  
Pimpinella Anisum ◽  
Hexane Extracts

Spices are a part of the plants used for many purposes as preservatives and as colorants in foods or as medicinal intention. Main aim of the present research was to estimate the potential antimicrobial activity of some spices from Apiaceae family such as Amni visnaga (Diş otu, Hıltan), Anethum graveolens (Dereotu), Apium graveolens (Kereviz), Coriandrum sativum (Kişniş), Cuminum cyminum (Kimyon), Daucus carota (Havuç), Foeniculum vulgare (Rezene), Petroselinum sativum (Maydanoz), Pimpinella anisum (Anason). Thus, the fruits of the plants are used in the experiments. The fruits have been extracted by n-hexane, and all extracts have been subjected to TLC (Thin Layer Chromatography). The n-hexane extracts were screened for their potential in vitro antibacterial activity against Staphylococcus aureus ATCC 29213, Enterococcus faecalis ATCC 29212, Escherichia coli ATCC 25922, Klebsiella pneumoniae ATCC 13883, Pseudomonas aeruginosa ATCC 27853 and antifungal activity against Candida albicans ATCC 10231 by microbroth dilution method. The hexane extracts of the fruits of Coriandrum sativum, Anethum graveolens, Daucus carota, and Pimpinella anisum did not show antimicrobial activity against tested microorganisms. Except these, the other extracts having MIC values of 2.5-5-10 mg/mL exhibited antimicrobial effect against some tested microorganisms. These results demonstrate that the extracts which have an antimicrobial effect can probably play a role as an antimicrobial agent owing to their nonpolar components which are accumulated to the n-hexane extracts.

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