scholarly journals ISSR-Markers Assisted Genetic Diversity Assessment of Acid Lime [Citrus aurantifolia (Christm.) Swingle] Germplasm of Eastern Nepal

2018 ◽  
Author(s):  
Nabin Narayan Munankarmi ◽  
Neesha Rana ◽  
Tribikram Bhattarai ◽  
Ram Lal Shrestha ◽  
Bal Krishna Joshi ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Binary Data ◽  
Issr Markers ◽  
Data Matrix ◽  
Dice Similarity Coefficient ◽  
Computer Algorithms ◽  
Significant Information ◽  
Citrus Aurantifolia ◽  
Diversity Assessment ◽  
Acid Lime

Acid lime [Citrus aurantifolia (Christm.) Swingle] is a fruit crop, enriched with high commercial value and is cultivated in 60 out of 75 districts representing all geographical landscapes of Nepal. Lack of high yielding cultivars is probably one of the main reason for its extremely reduced productivity which warrants a deep understanding of genetic diversity in existing germplasm. Hereby, we aim to access the genetic diversity of acid lime germplasm cultivated at 3-different ecological gradients of eastern Nepal employing PCR-based Inter-Simple Sequence Repeats markers (ISSR). Altogether, 21 polymorphic ISSR markers were used to assess the genetic diversity in 60 acid lime cultivars sampled from different geographical locations. Analysis of binary data matrix was performed on the basis of bands obtained, scoring of the data was done accordingly, and principal coordinate analysis and phenogram were constructed using different computer algorithms. ISSR profiling yielded 234 amplicons, of which 87.18% were found to be polymorphic. The number of amplified fragments ranged from 7-18 with amplicon size ranging from 250-3200 bp. The NTSYS based Cluster analysis using UPGMA algorithm taking Dice Similarity coefficient separated 60 accessions into 2-major and 3-minor clusters. The genetic diversity analysis revealed the highest for Terai and the lowest for High-hill zone. Cluster I comprised of accessions from High-hill and Mid-hill regions revealing the close genetic relationship, whereas cluster II comprised of accessions from all three agro-ecological zones and the exotic varieties. Furthermore, our results revealed the accessions harvested from different geographical gradients were not genetically distinct, but highest diversity was observed in Terai accessions in comparison to the regions belonging to the High and Mid-hills. Thus, our data indicate that the ISSR provides a better option for evaluating the genetic diversity of Nepalese Acid Lime cultivars and furnished significant information, assisting parental selection in current and future breeding programs and germplasm conservation which ultimately may help to provide a technological breakthrough for the farmers of the developing country like Nepal.

scholarly journals Genetic Diversity Assessment of Acid Lime (<i>Citrus aurantifolia</i> Swingle) Landraces in Nepal, Using SSR Markers

2012 ◽  
Vol 03 (12) ◽  
pp. 1674-1681 ◽  
Author(s):  
Ram Lal Shrestha ◽  
Durga Datta Dhakal ◽  
Durga Mani Gautum ◽  
Krishna Prasad Paudyal ◽  
Sangita Shrestha
Keyword(s):  
Genetic Diversity ◽  
Ssr Markers ◽  
Citrus Aurantifolia ◽  
Diversity Assessment ◽  
Acid Lime

scholarly journals Genetic Diversity Assessment of Acid Lime (Citrus Aurantifolia Swingle) Landraces of Eastern Nepal Using RAPD Markers

2014 ◽  
Vol 2 (3) ◽  
pp. 315-327 ◽  
Author(s):  
NN Munankarmi ◽  
RL Shrestha ◽  
N Rana ◽  
JKC Shrestha ◽  
S Shrestha ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Genetic Variation ◽  
Gene Diversity ◽  
Random Amplified Polymorphic Dna ◽  
Rapd Marker ◽  
Citrus Aurantifolia ◽  
Ecological Zones ◽  
Diversity Assessment ◽  
Acid Lime ◽  
Agro Ecological Zones

Acid lime (Citrus aurantifolia Swingle) is an important commercial fruit crop, cultivated from terai to high hill landscapes of Nepal. However, production and productivity is very low due to various reasons including infestations by various diseases and pests, lack of diseases and pests resistant and high yielding varieties. In this context, determination of genetic variation at molecular level is fundamental to citrus breeders for the development of elite cultivars with desirable traits. In the present study, Random Amplified Polymorphic DNA (RAPD) marker technique has been employed to assess genetic diversity in 60 acid lime landraces representing different agro-ecological zones of eastern Nepal. Nine selected arbitrary primers generated 79 RAPD fragments of which 75 were polymorphic (94.94%). Phenogram was constructed by NTSYSPC ver. 2.21i using UPGMA cluster analysis based on Jaccard’s similarity coefficient to deduce overall genetic diversity and relationships of the acidlime genotypes under study. Sixty acid lime landraces formed seven clusters and similarity value ranged from 38% to 98% with an average of 72%. Genetic variation at different agro-ecological zones was assessed using Popgene ver. 1.32 and found 47% to 69.6% polymorphism. Shannon’s index and Nei’s gene diversity showed highest level of acid lime diversity in Terai zone (PPB, 69.62%; H, 0.213; I, 0.325) followed by mid-hill zone (PPB, 67.09%; H, 0.208; I, 0.317). The results obtained will be useful to citrus breeders for elite cultivar development. The RAPD-PCR technique is found to be the rapid and effective tool for genetic diversity assessment in acid lime landraces of Nepal. DOI: http://dx.doi.org/10.3126/ijasbt.v2i3.10950  Int J Appl Sci Biotechnol, Vol. 2(3): 315-327  

Genetic diversity assessment and gene expression analysis of prolonged shelf-life genes in Mangalore melon (Cucumis melo ssp. agrestis var. acidulus)

2021 ◽  
Author(s):  
Raghavendra Gunnaiah ◽  
Ratnakar M. Shet ◽  
Ashwini Lamani ◽  
Dattatraya H. Radhika ◽  
Rudrappa C. Jagadeesha
Keyword(s):  
Genetic Diversity ◽  
Shelf Life ◽  
Candidate Genes ◽  
Cucumis Melo ◽  
South India ◽  
Ethylene Biosynthesis ◽  
Inter Simple Sequence Repeat ◽  
Issr Markers ◽  
Tree Construction ◽  
Diversity Assessment

Abstract Mangalore melon (Cucumis melo ssp. agrestis var. acidulus) is a non-dessert melon, extensively grown in the coastal districts of South India, but hardly known to the rest of the World. Immature or mature fruits of Mangalore melon are used in preparation of delicious dishes such as vegetable stew, chutneys and curries. They are appreciated for nutritional values, long shelf life and biotic stress resistance. Seventy-nine accessions of Mangalore melon were collected from five states of South India and their genetic diversity was assessed using inter simple sequence repeat (ISSR) markers. Putative candidate genes of extended shelf life in Mangalore melon were studied by quantitative reverse transcription polymerase chain reaction in comparison with cantaloupe (Cucumis melo L.). Shelf life varied from 65 days to 300 days at room temperature. Six ISSR primers amplified 142 fragments ranging from 80 bp to 2380 bp with an average of 23.66 bands per marker on a high-resolution capillary electrophoresis system. Neighbor joining phylogenetic tree construction from the ISSR allele similarity based genetic distance revealed two major clusters with 46 and 33 accessions in each cluster. Expression of fruit ripening related genes of ethylene biosynthesis (1-aminocyclopropane-1-carboxylate synthase, 1-aminocyclopropane-1-carboxylate oxidase) and cell wall metabolism (polygalacturonase, xyloglucan endotransglucosylase/hydrolase and expansin) in Mangalore melons was significantly lower than the cantaloupe melon at 180 days after harvest. Mangalore melon is a promising genetic resource for enhancing the shelf life of melons and the putative candidate genes are useful in enhancing shelf life of cantaloupe following validation and conformation.

scholarly journals Genetic diversity assessment in winter oilseed rape (Brassica napus L.) collection using AFLP, ISSR and SSR markers

2014 ◽  
Vol 50 (No. 3) ◽  
pp. 216-225 ◽  
Author(s):  
L. Havlíčková ◽  
E. Jozová ◽  
A. Rychlá ◽  
M. Klíma ◽  
V. Kučera ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Brassica Napus ◽  
Oilseed Rape ◽  
Issr Markers ◽  
Appropriate Technology ◽  
Winter Oilseed Rape ◽  
Brassica Napus L ◽  
High Genetic Diversity ◽  
Diversity Assessment ◽  
Breeding Programmes

The genetic diversity of 94 accessions of winter oilseed rape (Brassica napus L.), representing past and contemporary material utilized in the Czech breeding programmes, was determined using microsatellites (SSRs), ISSRs and AFLPs. All three kinds of markers differed in the range of observed polymorphism and differentiated clearly each accession. Altogether 89 SSR, 1003 AFLP and 53 ISSR markers were evaluated. Their average rates of polymorphic bands were 100%, 53.9% and 90.6%, respectively, indicating high genetic diversity among the accessions. The greatest genetic distance was found by ISSRs (62.3%) whereas significantly lower distances of 49.4% in SSRs and 35.5% in AFLPs were observed. The genetic similarity matrix clearly distinguished all accessions. A set of the most distinct varieties was established. The analysis of the genetic pattern of the accessions indicated two groups comprising most of the modern Czech breeding materials, revealing a distinct shift in breeding. Surprisingly, molecular analyses did not support&nbsp; breeders&rsquo; views about a narrow genetic base of the Czech breeding materials. The choice of appropriate technology for different aspects of germplasm evaluation is also discussed.

scholarly journals Genetic diversity assessment among Corema album (L.) D. Don (Ericaceae) genotypes based on ISSR markers and agro-morphological traits

2019 ◽  
Vol 67 (3) ◽  
pp. 715-726
Author(s):  
João Jacinto ◽  
Pedro Brás de Oliveira ◽  
Teresa Valdiviesso ◽  
Jorge Capelo ◽  
Pedro Arsénio ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Morphological Traits ◽  
Issr Markers ◽  
Diversity Assessment

Genetic Diversity Assessment in Amaranth Germplasm using AFLP and ISSR Markers

2014 ◽  
Vol 28 (4) ◽  
pp. 518-529 ◽  
Author(s):  
Olusegun A. Oduwaye ◽  
David K. Ojo ◽  
Akinola R. Popoola ◽  
Isaac O. Daniel ◽  
Miroslav Baránek ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Issr Markers ◽  
Diversity Assessment

Genetic diversity analysis in underutilized medicinal climber Mucuna pruriens (L.) DC. germplasm revealed by inter simple sequence repeats markers

2018 ◽  
Author(s):  
A. Chinapolaiah ◽  
K. Hima Bindu ◽  
G.N. Khadke ◽  
G.N. Manjesh ◽  
N. Hariprasad Rao ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Genetic Similarity ◽  
Issr Markers ◽  
Mucuna Pruriens ◽  
Diversity Analysis ◽  
Velvet Bean ◽  
Genetic Diversity Analysis ◽  
Inter Simple Sequence Repeats ◽  
Diversity Assessment ◽  
Simple Sequence

Velvet bean is an important medicinal legume, its seeds are prominent source of L-Dopa. The present investigation on genetic diversity assessment of 58 germplasm of velvet bean by using 11 ISSR markers. Out of 63 amplified products 59 were showed polymorphism and 4 were monomorphic with an average of 5.7 bands amplified per primer. According to band statistics and efficiency parameters showed the primers UBC 827, UBC 834 and UBC 836 were more efficient. The highest genetic similarity values (0.90) were observed between IIHR MP 102 and IIHR MP 74-3. In dendrogram germplasm grouped into two major clusters at 63 per cent similarity. Among the germplasm, IIHR Selection 4, IIHR Selection 10, IIHR MP 9, IC 33243 and IIHR MP 7 were found to be distinctly divergent, can be used in the further breeding programme.

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