Assessment of the Genetic Diversity in Bottle Gourd (Lagenaria siceraria [Molina] Standl.) Genotypes Using SDS-PAGE and RAPD Markers

Lagenaria siceraria (Molina) Standl is an important horticultural and medicinal crop grown worldwide in the food and pharmaceutical industries. The crop exhibits extensive phenotypic and genetic variation useful for cultivar development targeting economic traits; however, limited genomic resources are available for effective germplasm characterization into breeding and conservation strategies. This study determined the genetic relationships and population structure in a collection of different accessions of bottle gourd derived from Chile, Asia, and South Africa by using single-nucleotide polymorphism (SNP) markers and mining of simple sequence repeat (SSR) loci derived from genotyping-by-sequencing (GBS) data. The GBS resulted in 12,766 SNPs classified as moderate to highly informative, with a mean polymorphic information content of 0.29. The mean gene diversity of 0.16 indicated a low genetic differentiation of the accessions. Analysis of molecular variance revealed less differentiation between (36%) as compared to within (48%) bottle gourd accessions, suggesting that a random mating system dominates inbreeding. Population structure revealed two genetically differentiated groups comprising South African accessions and an admixed group with accessions of Asian and Chilean origin. The results of SSR loci mining from GBS data should be developed and validated before being used in diverse bottle gourd accessions. The SNPs markers developed in the present study are useful genomic resources in bottle gourd breeding programs for assessing the extent of genetic diversity for effective parental selection and breeding.

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Genetic Diversity of South African Bottle Gourd [Lagenaria siceraria (Molina) Standl.] Landraces Revealed by Simple Sequence Repeat Markers

HortScience ◽

10.21273/hortsci.51.2.120 ◽

2016 ◽

Vol 51 (2) ◽

pp. 120-126 ◽

Cited By ~ 6

Author(s):

Jacob Mashilo ◽

Hussein Shimelis ◽

Alfred Odindo ◽

Beyene Amelework

Keyword(s):

Genetic Diversity ◽

South African ◽

Simple Sequence Repeat ◽

Polymorphic Information Content ◽

Bottle Gourd ◽

Lagenaria Siceraria ◽

Sequence Repeat ◽

Dissimilarity Index ◽

The Mean ◽

Simple Sequence

Bottle gourd [Lagenaria siceraria (Molina) Standl.] landraces are widely grown in South Africa, and genetic diversity analysis is necessary to identify promising genotypes for breeding or systematic conservation. Sixty-seven diverse bottle gourd landraces were genotyped using 14 selected simple sequence repeat (SSR) markers. The number of alleles detected per marker ranged from 4 to 11, with a total of 86 putative alleles being amplified. Allele sizes ranged from 145 to 330 base pair (bp). Number of effective alleles (Ne) ranged from 1.58 to 6.14 with a mean of 3.10. Allelic richness varied from 3.00 to 8.90 with a mean of 5.23. Expected heterozygosity (He) values ranged from 0.37 to 0.84 with a mean of 0.65. The mean polymorphic information content (PIC) was 0.57. Jaccard’s coefficient of similarity values ranged from 0.00 to 1.00, with a mean of 0.63. Analysis of molecular variance (AMOVA) revealed that 79%, 17%, and 4% of the variation in bottle gourd landraces was attributable to among landraces, within landraces, and between populations, respectively. The study established the existence of considerable genetic diversity among South African bottle gourd landraces. Unique landraces such as BG-4, BG-6, BG-8, BG-9, and BG-15 from cluster I; BG-55, BG-42, BG-57, and BG-58 from cluster II; BG-28, BG-23, BG-29, and BG-34 from cluster III were selected based on their highest dissimilarity index. These could be useful for bottle gourd breeding and systematic conservation.

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A study of genetic diversity in bottle gourd [Lagenaria siceraria (Molina) Standl.] population, and implication for the historical origins on bottle gourds in Turkey

Genetic Resources and Crop Evolution ◽

10.1007/s10722-015-0224-8 ◽

2015 ◽

Vol 62 (3) ◽

pp. 321-333 ◽

Cited By ~ 6

Author(s):

Kahraman Gürcan ◽

Ahmet Say ◽

Halit Yetişir ◽

Nihal Denli

Keyword(s):

Genetic Diversity ◽

Bottle Gourd ◽

Lagenaria Siceraria ◽

Historical Origins

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Biodiversity assessment of African locust bean (Parkia biglobosa) accessions from Savanna and Forest zones of Nigeria as revealed by seed storage proteins and RAPD markers

Genetic Resources ◽

10.46265/genresj.obvw6791 ◽

2021 ◽

Vol 2 (3) ◽

pp. 36-50

Author(s):

Pamela Eloho Akin-Idowu ◽

Ayodeji O. Aduloju ◽

Omolara I. Akinyoola ◽

Dorcas Olubunmi Ibitoye ◽

Uterdzua Orkpeh ◽

...

Keyword(s):

Genetic Diversity ◽

Rapd Markers ◽

Seed Protein ◽

Seed Storage ◽

Similarity Coefficient ◽

Protein Profiling ◽

Parkia Biglobosa ◽

Sds Page ◽

Locust Bean ◽

African Locust Bean

Understanding the level and distribution of genetic diversity in African locust bean (Parkia biglobosa) would strengthen breeding and conservation programmes towards domestication and sustainable use of this species. Sixteen accessions of P. globosa were assessed for variability based on seed morphology, seed protein and DNA profiling. Significant variation in seed characteristics were observed across locations. Seed protein profiling by SDS-PAGE revealed homogeneity as most bands were found common in all accessions, indicating that the protein profiles are highly conserved. Protein profiling separated the 16 accessions into four major clusters at 0.93 similarity coefficient. Most accessions grouping into Cluster 1 had a similarity coefficient of close to 100% and were from the Derived Savanna suggesting the presence of duplicates. Accessions NH/2016/P14, NH/2016/P03 and NH/2016/P04 grouped into clusters II, III and IV; respectively. Sixteen RAPD markers generated a total of 256 bands of which 63.67% were polymorphic. Gene diversity ranged from 0.41 to 0.93 and Polymorphic Information Content (PIC) from 0.39 to 0.93. The RAPD-based dendrogram separated accessions into six groups at 0.68 similarity coefficient. Based on a polymorphic seed storage protein marker a genetically distinct accession NH/2016/P04 could be exploited for breeding purposes. The homogeneity of alleles and narrow genetic base as revealed by RAPD and SDS-PAGE analyses suggests possible loss of intraspecific genetic diversity. Thus, intensification of germplasm collections across the different agroecological zones and characterization using specific markers will give a better understanding of diversity of P. biglobosa in order to enhance selection towards conservation, breeding and sustainable utilization.

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