New Genetic Insights into Pearl Millet Diversity As Revealed by Characterization of Early- and Late-Flowering Landraces from Senegal

Diack, Oumar; Kane, Ndjido Ardo; Berthouly‐Salazar, Cécile; Guèye, Mame Codou; Diop, B; Fofana, Amadou; Sy, Ousmane; Tall, Hamidou; Zekraoui, Leïla; Piquet, Marie; Couderc, Marie; Vigouroux, Yves; Diouf, Diaga; Barnaud, Adéline

doi:10.3389/fpls.2017.00818

Cited by 29 publications

(41 citation statements)

References 32 publications

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“…Therefore, a vast diversity for numerous agromorphological traits can be found in this region (Gemenet et al, 2014; Pucher et al, 2015; Gemenet et al, 2016a; Sattler et al, 2017). In an attempt to identify heterotic groups, Diack et al (2017) was able to distinguish early‐ from late‐flowering genotypes in Senegal using simple sequence repeat (SSR) markers, but not their combining ability and heterosis. Five overlapping subgroups were identified by Stich et al (2010) in a set of 145 WA inbred lines using SSR markers.…”

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Identification of Combining Ability Patterns for Pearl Millet Hybrid Breeding in West Africa

et al. 2019

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Diets of West African (WA) smallholder farmers are built on pearl millet [Pennisetum glaucum (L.) R. Br.]. Sustainable pearl millet hybrid breeding is challenging in WA, mostly due to an extensive genetic diversity combined with a high degree of admixture. In the absence of natural heterotic groups, understanding combining ability patterns can enable systematic development of heterotic groups and make sustainable hybrid breeding feasible. The objectives of this study were to evaluate heterosis and combining ability patterns and their relationship with genetic distance among WA pearl millets based on population hybrids, and to derive conclusions for future breeding programs. Therefore, 17 open‐pollinated varieties (OPVs) were crossed in a diallel mating design and tested together with their offspring in nine environments over 2 yr in Niger and Senegal. Genetic distances between the OPVs were evaluated with twenty microsatellite markers. Average panmictic better‐parent heterosis (PBPH) was 18% (1–47%) for panicle yield. A principal coordinate analysis based on genotyping results separated parental OPVs clearly by geographic origin. Although there was no relationship between genetic distance among OPVs and PBPH, we confirmed good combining ability among selected OPVs from Niger vs. Senegal. The identified cultivars (Nigerien CIVT, H80‐10Gr, and Taram and Senegalese Thialack 2 and Souna 3) with high combining ability are recommended for founding divergent heterotic pools targeting long‐panicle pearl millet hybrids. Our study shows the benefits of population hybrids and represents an important step to identify combining ability patterns and initial heterotic groups for WA pearl millet hybrid breeding.

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Identification of Combining Ability Patterns for Pearl Millet Hybrid Breeding in West Africa

et al. 2019

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“…Genetic characterization of early-and late-owering landraces from Senegal also indicated a large diversity in Senegalese pearl millet germplasm that may be useful in de ning heterotic groups and formation of a genomic association panels for trait mapping (Diack et al, 2017). This study provides a survey of genetic variation in pearl millet inbred lines from different geographic regions in Africa and Asia representing various agroecological niches.…”

Section: Germplasm Resources and The Genetic Diversity Of A Crop Specmentioning

confidence: 89%

Genomic diversity in pearl millet inbred lines derived from landraces and improved varieties

Kanfany

Serba

Rhodes

et al. 2020

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Background: Genetic improvement of pearl millet is lagging behind most of the major crops. Development of genomic resources is expected to expedite breeding for improved agronomic traits, stress tolerance, yield, and nutritional quality. Genotyping a breeding population with high throughput markers enables exploration of genetic diversity, population structure, and linkage disequilibrium (LD) which are important preludes for marker-trait association studies and application of genomic-assisted breeding. Results: Genotyping-by-sequencing (GBS) libraries of 309 inbred lines derived from landraces and improved varieties from Africa and India generated 54,770 high quality single nucleotide polymorphism (SNP) markers. On average one SNP per 29 Kb was mapped in the reference genome, with the telomeric regions more densely mapped than the pericentromeric regions of the chromosomes. Population structure analysis using 30,208 SNPs evenly distributed in the genome divided 309 accessions into five subpopulations with different levels of admixture. Pairwise genetic distance (GD) between accessions varied from 0.09 to 0.33 with the average distance of 0.28. Rapid LD decay implied low tendency of markers inherited together. Genetic differentiation estimates were the highest between subgroups 4 and 5, and the lowest between subgroups 1 and 2. Conclusions: Population genomic analysis of pearl millet inbred lines derived from diverse geographic and agroecological features identified five subgroups mostly following pedigree differences with different levels of admixture. It also revealed the prevalence of high genetic diversity in pearl millet, which is very useful in defining heterotic groups for hybrid breeding, trait mapping, and holds promise for improving pearl millet for yield and nutritional quality. The short LD decay observed suggests an absence of persistent haplotype blocks in pearl millet. The diverse genetic background of these lines and their low LD make this set of germplasm useful for traits mapping.

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“…Only a limited number of studies have assessed the evolutionary dynamics and genetic diversity patterns in pearl millet. Genetic characterization of early-and late-flowering landraces from Senegal also indicated a large diversity in Senegalese pearl millet germplasm that may be useful in defining heterotic groups and formation of a genomic association panels for trait mapping (Diack et al, 2017).…”

Section: Genetic Differentiationmentioning

confidence: 99%

Genomic diversity in pearl millet inbred lines derived from landraces and improved varieties

Serba

Kanfany

Rhodes

et al. 2020

Preprint

View full text Add to dashboard Cite

Background: Genetic improvement of pearl millet is lagging behind most of the major crops.Development of genomic resources is expected to expedite breeding for improved agronomic traits, stress tolerance, yield, and nutritional quality. Genotyping a breeding population with high throughput markers enables exploration of genetic diversity, population structure, and linkage disequilibrium (LD) which are important preludes for marker-trait association studies and application of genomic-assisted breeding.Results: Sequencing the genotyping-by-sequencing (GBS) libraries of 309 inbred lines derived from landraces and improved varieties from Africa and India generated 54,770 high quality single nucleotide polymorphism (SNP) markers. On average one SNP per 29 Kb was mapped in the reference genome, with the telomeric regions more densely mapped than the pericentromeric regions of the chromosomes. Population structure analysis using 30,208 SNPs evenly distributed in the genome divided 309 accessions into five subpopulations with different levels of admixture. Pairwise genetic distance (GD) between accessions varied from 0.09 to 0.33 with the average distance of 0.28. Rapid LD decay implied low tendency of markers inherited together. Genetic differentiation estimates were the highest between subgroups 4 and 5, and the lowest between subgroups 1 and 2. Conclusions:Population genomic analysis of pearl millet inbred lines derived from diverse geographic and agroecological features identified five subgroups mostly following pedigree differences with different levels of admixture. It also revealed the prevalence of high genetic diversity in pearl millet, which is very useful in defining heterotic groups for hybrid breeding, trait mapping, and holds promise for improving pearl millet for yield and nutritional quality. The short LD decay observed suggests an absence of persistent haplotype blocks in pearl millet. The diverse genetic background of these lines and their low LD make this set of germplasm useful for traits mapping. BackgroundPearl millet (Pennisetum glaucum (L.) R. Br. syn. Cenchrus americanus (L.) Morrone) is a climateresilient crop grown in the arid and semi-arid areas of the world. Pearl millet is the most widely grown millet species, accounting for approximately half of the total worldwide production of millets (Taylor,

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New Genetic Insights into Pearl Millet Diversity As Revealed by Characterization of Early- and Late-Flowering Landraces from Senegal

Cited by 29 publications

References 32 publications

Identification of Combining Ability Patterns for Pearl Millet Hybrid Breeding in West Africa

Identification of Combining Ability Patterns for Pearl Millet Hybrid Breeding in West Africa

Genomic diversity in pearl millet inbred lines derived from landraces and improved varieties

Genomic diversity in pearl millet inbred lines derived from landraces and improved varieties

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