Genetic diversity among air yam (Dioscorea bulbifera) varieties based on single sequence repeat markers

Silva, D. M.; Siqueira, Marcos Vinícius Bohrer Monteiro; Carrasco, Noèlia; Mantello, Camila Campos; Nascimento, Wellington Ferreira do; Veasey, Elizabeth Ann

doi:10.4238/gmr.15027929

Cited by 9 publications

(3 citation statements)

References 34 publications

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“…Likewise, Tewodros (2013) studied the level of genetic diversity within D. bulbifera accessions collected from South and Southwestern Ethiopia based on key agronomic traits and reported the existence of high diversity in the region. Silva et al (2016) also evaluated genetic diversity among 42 D. bulbifera accessions from Brazil using microsatellite markers and found high genetic diversity.…”

Section: Application Of Issr Markers Inmentioning

confidence: 99%

Genetic diversity assessment of yams (Dioscorea spp.) from Ethiopia using inter simple sequence repeat (ISSR) markers

Ousmael¹,

Tesfaye²,

Hailesilassie³

2019

Afr. J. Biotechnol.

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The genetic diversity and relationships of 70 accessions of yam belonging to Dioscorea cayenensis/Dioscorea rotundata complex (55), Dioscorea bulbifera (13) and Dioscorea alata (2, as a reference) were assessed using six inter simple sequence repeat (ISSR) primers. DNA was extracted from a bulk of two plants per accession using a modified cetyl trimethyl ammonium bromide (CTAB) method. Six ISSR primers amplified 77 fragments with 75 (97.40%) polymorphism at genus level. The genetic diversity, estimated by gene diversity and Shannon's index were 0.36 and 0.53, respectively, revealing a high level of genetic variation at genus level. At species level, 75 bands were amplified for D. cayenensis/D. rotundata complex, out of which 71 were polymorphic accounting for 92.2% polymorphism. Gene diversity and Shannon's index for D. cayenensis/D. rotundata complex were 0.33 and 0.49, respectively. In the case of D. bulbifera, a total of 64 bands were scored, out of which 55 were found to be polymorphic which resulted in 71.4% polymorphism. Gene diversity and Shannon's index for this species were 0.24 and 0.47, respectively. Genetic diversity analysis of D. cayenensis/D. rotundata complex accessions showed that Gedeo was the most diverse among populations and South among groups. Analysis of molecular variance (AMOVA) indicated the presence of higher proportion of variation within species (63.9%) than among species (36.1%). AMOVA for D. cayenensis/D. rotundata complex also showed higher within population variation (53.6) than among populations (46.4). In addition, cluster analysis for relationship between D. cayenensis/D. rotundata complex accessions showed grouping of some of the accessions according to their population but it failed to produce clear species boundary between D. cayenensis/D. rotundata complex. The results suggest that there is a high level of genetic diversity in Ethiopia yams to be exploited for future improvement (breeding) of the crop.

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Section: Application Of Issr Markers Inmentioning

confidence: 99%

Genetic diversity assessment of yams (Dioscorea spp.) from Ethiopia using inter simple sequence repeat (ISSR) markers

Ousmael¹,

Tesfaye²,

Hailesilassie³

2019

Afr. J. Biotechnol.

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“…Clustering based on molecular marker analysis differed from clustering based on morphological characters. That could happen due to the gene flow between accessions as mentioned in Manihot esculenta (Halsey et al 2008), Ipomoea batatas (Roullier et al 2013), and Dioscorea bulbifera (Silva et al 2016). The loss of genetic structure in D. alata is related to the behavior of farmers who often exchange planting material (in this case in the form of tubers) between farmers and even bring the planting material to other regions and causing the mixing of genotypes (Siqueira 2011;Siqueira et al 2014).…”

Section: Accession Clustering Based On Molecular Markermentioning

confidence: 99%

Cluster analysis of Dioscorea alata accessions of Purwodadi Botanic Gardens (Indonesia) collection based on morphological characteristic and SSR markers

2019

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Abstract. Mas’udah S, Fauziah, Hapsari L. 2019. Cluster analysis of Dioscorea alata accessions of Purwodadi Botanic Gardens (Indonesia) collection based on morphological characteristics and SSR markers. Cell Biol Dev 3: 6-12. The morphological characteristics of D. alata accessions show a high diversity, especially the tubers with varying form, size, weight, color, and flesh. Classification and naming of D. alata accessions generally use different local names in each region, causing problems. This study aimed to classify 20 accession numbers of D. alata collection of Purwodadi Botanic Garden collected from East Java based on tuber morphological characteristics and simple sequence repeat (SSR) molecular markers. Based on the morphological characteristic, the accessions showed high variation. However, from the seventeen characters observed, two characters were similar, and 15 others were diverse. The main morphological characteristics that contribute to the cluster are tuber skin color, tuber shape, and the color of the inner skin of the tuber. Clustering results based on DNA amplification showed different groups compared to the morphological characters cluster, although some accessions with close morphological characters were in the same molecular Group. The accession origin could not be used as the group marker. Marker E11 and A7 have the highest polymorphisms in this experiment. As conservation strategies, accessions with high-level similarity could be represented by one accession for maintenance efficiency. Conserving species until varieties level with different characters could enrich germplasm for breeding development.

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“…This has created bottlenecks in varietal tracking and identification based on the clonal attributes of yam. Till date there is no evidenced based study that tries to validate the status of yam adoption in Nigeria, Morphological markers are not reliable in identifying yam varieties, and molecular markers like SSRs have been revealed to be reliable alternative (Obidiegwu et al, 2009b, c;Siqueira et al, 2011;Silva et al, 2016). This preliminary study was conducted to verify the adoption status of seven (7) released varieties including D. rotundata and D. alata in Nigeria using Simple Sequence Repeats (SSRs).…”

Section: Introductionmentioning

confidence: 99%

Preliminary verification of the adoption status of some yam (Dioscorea rotundata and Dioscorea alata) varieties in Nigeria using microsatellites markers

Nwogha¹,

Obidiegwu²,

Okereke³

et al. 2022

Afr. J. Biotechnol.

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The persistent low yield and farmers' preference of their traditional yam varieties over the improved varieties necessitated this study to verify the adoption status of the released varieties in Nigeria. A total of 48 accessions of white yam (Dioscorea rotundata) were sampled from six states of Ebonyi, Enugu, Benue, Kogi, Nassarawa and Oyo within Nigeria yam-belt and were genotyped for relatedness to four released varieties from the National Root Crops Research Institute (NRCRI), Umudike yam breeding programme, while 14 accessions of water yam (D. alata) were sampled from four states of Benue, Kogi, Nassarawa and Oyo and were also genotyped for relatedness to three released varieties from International Institute for Tropical Agriculture (IITA), Ibadan. A total of 29 alleles were found in 5 sets of primers analyzed for 52 D. rotundata accessions and the number of alleles ranged from 5 (Dald08, SSR 51 and YM 34) to 8 (Dab2E07) with an average of 5.8 per locus. The observed heterozygosity ranged from 0.19 (YM34) to 0.77 (YM30). A total gene diversity of 0.63 according to Nei (1978) genetic distance coefficients was observed among the 52 D. rotundata accessions. Similarly, a total of 37 alleles were observed when 17 D. alata accessions were analysed with the 7 selected sets of primers. An average of 5.29 alleles was observed per locus. The observed heterozygosity varied from 0.47 (Dab2D06) to 0.82 (YM34). A total gene diversity of 0.58 was observed among 17 D. alata accessions according to Nei' genetic distance coefficients. Cluster analysis showed that the D. rotundata accessions were classified into 8 clusters. While, 17 accessions of D. alata were classified into 4 clusters. There were relationships between some released varieties and farmers accessions and also among the farmers' accessions from different locations, indicating that farmers might have given a preferred local name to the released varieties.

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Genetic diversity among air yam (Dioscorea bulbifera) varieties based on single sequence repeat markers

Cited by 9 publications

References 34 publications

Genetic diversity assessment of yams (Dioscorea spp.) from Ethiopia using inter simple sequence repeat (ISSR) markers

Genetic diversity assessment of yams (Dioscorea spp.) from Ethiopia using inter simple sequence repeat (ISSR) markers

Cluster analysis of Dioscorea alata accessions of Purwodadi Botanic Gardens (Indonesia) collection based on morphological characteristic and SSR markers

Preliminary verification of the adoption status of some yam (Dioscorea rotundata and Dioscorea alata) varieties in Nigeria using microsatellites markers

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