scholarly journals Assessment of Genetic Diversity of Rice in Registered Cultivars and Farmers’ Fields in Burkina Faso

Crops ◽  
2021 ◽  
Vol 1 (3) ◽  
pp. 129-141
Author(s):  
Mariam Barro ◽  
Kadougoudiou Abdourasmane Konate ◽  
Issa Wonni ◽  
Abalo Itolou Kassankogno ◽  
François Sabot ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Burkina Faso ◽  
Single Nucleotide Polymorphism Array ◽  
Genetic Group ◽  
Cultivated Rice ◽  
Single Nucleotide ◽  
Agronomic Practices ◽  
Rainfed Lowland ◽  
Rice Samples ◽  
Western Burkina Faso

The genetic diversity of cultivated rice in farmers’ fields remains understudied in West Africa despite the importance of rice for food security in this region. In this study, we genotyped rice samples from Burkina Faso using the C6AIR SNP (Single Nucleotide Polymorphism) array (IRRI), including 27 registered cultivars and 50 rice samples collected in rice fields from three geographical zones in western Burkina Faso. Most of the registered cultivars clustered with the indica genetic group, except seven assigned to japonica and one admix. All but one of the rice samples from farmers’ fields belonged to the indica group. The other field sample, which unexpectedly clustered with the Aus genetic group, originated from a rainfed lowland site known to differ in terms of agronomic practices, and which revealed to be highly differentiated from the five other sites. Apart from this peculiar site, the rice grown in irrigated areas did not differ from rice sampled in rainfed lowlands. Finally, obtained genetic data confirmed the high frequency of one cultivar, in congruence with farmers’ interviews. We argue on the importance to document and preserve the high agro-biodiversity observed in rice from Burkina Faso as a prerequisite to face the current challenges of growing rice demand and global change.

scholarly journals Genetic Structure and Diversity of Rice From Certified Cultivars and Farmer’s Fields in Burkina Faso

2021 ◽  
Author(s):  
Mariam BARRO ◽  
Abdourasmane KONATE ◽  
Issa WONNI ◽  
Abalo Itolou KASSANKOGNO ◽  
François SABOT ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Oryza Sativa ◽  
West Africa ◽  
Burkina Faso ◽  
Snp Array ◽  
Genetic Data ◽  
Genetic Group ◽  
Oryza Glaberrima ◽  
Rainfed Lowland ◽  
Rice Samples

Abstract Background: In West Africa, two rice species are cultivated, the African rice Oryza glaberrima and the Asian rice Oryza sativa, the second one being much more frequent. Despite its importance for food security in West Africa, the genetic diversity of Oryza sativa in farmer’s fields remains understudied in this region. Documenting the dynamics of diversity in the fields between landraces and improved cultivars is of importance to ensure rice cultivation adaptation to global change.In this study, we genotyped 77 rice samples from Burkina Faso using the C6AIR SNP array from IRRI. Among the studied samples, 27 were certified cultivars and 50 were sampled in rice fields from three geographical zones in western Burkina Faso, each zone comprising one irrigated area and a neighboring rainfed lowland. Obtained data were analyzed in the frame of the worldwide rice genetic diversity by using the 3K genomes as reference.Results: Most of the certified cultivars clustered with the indica genetic group, with a minority (26%) assigned to the japonica group. All except one of the rice samples from farmer’s fields belonged to the indica group. The peculiar one unexpectedly clustered with the Aus genetic group and originated from Tengrela (rainfed lowland in Karfiguela zone). This site, already known to differ in terms of agronomic practices, showed the highest genetic diversity compared to the five other sites, as well as highest genetic differentiation. Obtained genetic data confirmed the high global frequency of one cultivar, in accordance with the data from farmer’s interview. However, at the field level, genetic data rarely corresponded to the cultivar’s names obtained from farmer’s interviews.Conclusions: Overall we found a high genetic diversity in the studied samples from Burkina Faso (certified and field’s samples). We argue on the importance to document and preserve this agro-biodiversity as a prerequisite to face the current challenges of growing rice demand and global change. To this purpose, are required further scientific studies to refine our understanding of the dynamics of diversity in farmers’ fields, as well as a better knowledge of rice agro-biodiversity and awareness of its importance by rice farmers themselves.

scholarly journals Single nucleotide polymorphism (SNP)-based genetic diversity in a set of Burkina Faso cowpea germplasm

2018 ◽  
Vol 13 (19) ◽  
pp. 978-987 ◽  
Author(s):  
Benoit Joseph Batieno Teyioué ◽  
Souleymane Oumarou ◽  
Tignegre Jean-Baptiste ◽  
Huynh Bao-Lam ◽  
Kusi Francis ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Single Nucleotide Polymorphism ◽  
Burkina Faso ◽  
Nucleotide Polymorphism ◽  
Single Nucleotide

scholarly journals Worldwide phylogeography and history of wheat genetic diversity

2019 ◽  
Vol 5 (5) ◽  
pp. eaav0536 ◽  
Author(s):  
François Balfourier ◽  
Sophie Bouchet ◽  
Sandra Robert ◽  
Romain De Oliveira ◽  
Hélène Rimbert ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Single Nucleotide Polymorphism Array ◽  
Human Migration ◽  
Structural Variations ◽  
Single Nucleotide ◽  
Breeding Programs ◽  
Allele Distribution ◽  
Fertile Crescent ◽  
History Of ◽  
New Alleles

Since its domestication in the Fertile Crescent ~8000 to 10,000 years ago, wheat has undergone a complex history of spread, adaptation, and selection. To get better insights into the wheat phylogeography and genetic diversity, we describe allele distribution through time using a set of 4506 landraces and cultivars originating from 105 different countries genotyped with a high-density single-nucleotide polymorphism array. Although the genetic structure of landraces is collinear to ancient human migration roads, we observe a reshuffling through time, related to breeding programs, with the appearance of new alleles enriched with structural variations that may be the signature of introgressions from wild relatives after 1960.

scholarly journals Genetic Diversity of Purple Passion Fruit, Passiflora edulis f. edulis, Based on Single-Nucleotide Polymorphism Markers Discovered through Genotyping by Sequencing

Diversity ◽  
2021 ◽  
Vol 13 (4) ◽  
pp. 144
Author(s):  
Nohra Castillo Rodríguez ◽  
Xingbo Wu ◽  
María Isabel Chacón ◽  
Luz Marina Melgarejo ◽  
Matthew Wohlgemuth Blair
Keyword(s):  
Genetic Diversity ◽  
Single Nucleotide Polymorphism ◽  
Genotyping By Sequencing ◽  
Passion Fruit ◽  
Nucleotide Polymorphism ◽  
Single Nucleotide ◽  
Passiflora Edulis ◽  
Tropical Fruit ◽  
Commercial Cultivars ◽  
Purple Passion Fruit

Orphan crops, which include many of the tropical fruit species used in the juice industry, lack genomic resources and breeding efforts. Typical of this dilemma is the lack of commercial cultivars of purple passion fruit, Passiflora edulis f. edulis, and of information on the genetic resources of its substantial semiwild gene pool. In this study, we develop single-nucleotide polymorphism (SNP) markers for the species and show that the genetic diversity of this fruit crop has been reduced because of selection for cultivated genotypes compared to the semiwild landraces in its center of diversity. A specific objective of the present study was to determine the genetic diversity of cultivars, genebank accession, and landraces through genotyping by sequencing (GBS) and to conduct molecular evaluation of a broad collection for the species P. edulis from a source country, Colombia. We included control genotypes of yellow passion fruit, P. edulis f. flavicarpa. The goal was to evaluate differences between fruit types and compare landraces and genebank accessions from in situ accessions collected from farmers. In total, 3820 SNPs were identified as informative for this diversity study. However, the majority distinguished yellow and purple passion fruit, with 966 SNPs useful in purple passion fruits alone. In the population structure analysis, purple passion fruits were very distinct from the yellow ones. The results for purple passion fruits alone showed reduced diversity for the commercial cultivars while highlighting the higher diversity found among landraces from wild or semi-wild conditions. These landraces had higher heterozygosity, polymorphism, and overall genetic diversity. The implications for genetics and breeding as well as evolution and ecology of purple passion fruits based on the extant landrace diversity are discussed with consideration of manual or pollinator-assisted hybridization of this species.

Sign in / Sign up

Export Citation Format

Share Document