Genome-Wide Assessment of Population Structure and Genetic Diversity of the Global Finger Millet Germplasm Panel Conserved at the ICRISAT Genebank

Backiyalakshmi, C.; Vetriventhan, Mani; Deshpande, Santosh; Babu, C.; Allan, Victor; Naresh, D.; Gupta, Rajeev; Azevedo, V. C. R.

doi:10.3389/fpls.2021.692463

Cited by 6 publications

(11 citation statements)

References 71 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…Genome-wide association studies (GWAS) has been used in pearl millet for the identification of putative genes related to flowering time 25 , iron, zinc and protein content 26 , downy mildew resistance 27 and Sh resistance 28 . Also, GWAS has been used in finger millet for the identification of genes associated with Striga resistance 29 and grain nutritional contents 30 and for genetic diversity analysis 31 . GWAS is a valuable genomic tool to identify quantitative trait loci (QTLs) linked to Striga resistance for marker-assisted selection.…”

Section: Introductionmentioning

confidence: 99%

Genome-wide association analyses of agronomic traits and Striga hermonthica resistance in pearl millet

Rouamba,

Shimelis,

Drabo

et al. 2023

Sci Rep

View full text Add to dashboard Cite

Pearl millet (Pennisetum glaucum [L.] R. Br.) is a nutrient-dense, relatively drought-tolerant cereal crop cultivated in dry regions worldwide. The crop is under-researched, and its grain yield is low (< 0.8 tons ha−1) and stagnant in the major production regions, including Burkina Faso. The low productivity of pearl millet is mainly attributable to a lack of improved varieties, Striga hermonthica [Sh] infestation, downy mildew infection, and recurrent heat and drought stress. Developing high-yielding and Striga-resistant pearl millet varieties that satisfy the farmers’ and market needs requires the identification of yield-promoting genes linked to economic traits to facilitate marker-assisted selection and gene pyramiding. The objective of this study was to undertake genome-wide association analyses of agronomic traits and Sh resistance among 150 pearl millet genotypes to identify genetic markers for marker-assisted breeding and trait introgression. The pearl millet genotypes were phenotyped in Sh hotspot fields and screen house conditions. Twenty-nine million single nucleotide polymorphisms (SNPs) initially generated from 345 pearl millet genotypes were filtered, and 256 K SNPs were selected and used in the present study. Phenotypic data were collected on days to flowering, plant height, number of tillers, panicle length, panicle weight, thousand-grain weight, grain weight, number of emerged Striga and area under the Striga number progress curve (ASNPC). Agronomic and Sh parameters were subjected to combined analysis of variance, while genome-wide association analysis was performed on phenotypic and SNPs data. Significant differences (P < 0.001) were detected among the assessed pearl millet genotypes for Sh parameters and agronomic traits. Further, there were significant genotype by Sh interaction for the number of Sh and ASNPC. Twenty-eight SNPs were significantly associated with a low number of emerged Sh located on chromosomes 1, 2, 3, 4, 6, and 7. Four SNPs were associated with days-to-50%-flowering on chromosomes 3, 5, 6, and 7, while five were associated with panicle length on chromosomes 2, 3, and 4. Seven SNPs were linked to thousand-grain weight on chromosomes 2, 3, and 6. The putative SNP markers associated with a low number of emerged Sh and agronomic traits in the assessed genotypes are valuable genomic resources for accelerated breeding and variety deployment of pearl millet with Sh resistance and farmer- and market-preferred agronomic traits.

show abstract

Section: Introductionmentioning

confidence: 99%

Genome-wide association analyses of agronomic traits and Striga hermonthica resistance in pearl millet

Rouamba,

Shimelis,

Drabo

et al. 2023

Sci Rep

View full text Add to dashboard Cite

show abstract

“…Repeat markers (EST-SSR) (Brhane et al, 2021;Bwalya et al, 2020) and SNP (Backiyalakshmi et al, 2021;Gimode et al, 2016). Venkatesan et al (2021) employed ISSR markers for the accurate identification of traditional and hybrid varieties of finger millet, while Krishna et al (2020) used SSR, RAPD and ISSR to examine the genetic purity of F1 hybrids.…”

Section: Molecular Markers and Quantitative Trait Loci (Qtl) Mapping ...mentioning

confidence: 99%

“…Finger millet is grown in more than 50 different countries worldwide, including 27 African countries (Backiyalakshmi et al, 2021; Maharajan et al, 2021; Mirza & Marla, 2019; Radchuk et al, 2012). Figure 1 presents countries of finger millet production.…”

Section: Global Production and Productivity Of Finger Milletmentioning

confidence: 99%

“…The stalk is used as livestock feed, thatching and bedding material. The grain has extended storage quality (Ceasar et al, 2018), with unique nutritional composition, including high levels of Ca, Fe, Zn, K, Mg, Mn, dietary fibre, phenolic compounds, essential amino acids (e.g., cystine, methionine and tryptophan) (Backiyalakshmi et al, 2023; Devi et al, 2011; Kudapa et al, 2023; Maharajan et al, 2022). Finger millet food products are believed to lower blood cholesterol levels and blood pressure (Anitha, Botha, et al, 2021) and possess anti‐cancer (Chandrasekara & Shahidi, 2011; Devi et al, 2011); and anti‐ageing properties (Puranik et al, 2020; Kumar, Rani, et al, 2021).…”

Section: Introductionmentioning

confidence: 99%

See 1 more Smart Citation

Finger millet (Eleusine coracana) improvement: Challenges and prospects—A review

Gebreyohannes,

Shimelis,

Mashilo

et al. 2024

Plant Breeding

View full text Add to dashboard Cite

Finger millet is a climate‐resilient and highly nutritious small grain crop widely grown in the semi‐arid tropics. It has multiple uses, including for food, feed and beverage preparations. However, finger millet is an under‐utilized and under‐researched crop with a mean yield of <1.0 t/ha despite a potential productivity of up to 8 t/ha. The yield gap is attributed to several production constraints, such as biotic and abiotic stresses, a lack of access to improved seeds and production inputs and poor agronomic management practices. There are valuable genetic resources and genetic variability of finger millet in its centres of diversity and global gene banks for variety design, product development and commercialization. The genetic variability can be harnessed further to integrate essential traits into candidate varieties through conventional and modern breeding methods. Breeding and genetic innovations such as genomics‐assisted breeding, mutation breeding and genome editing would accelerate finger millet breeding and new variety design and deployment. The objective of this review was to document the opportunities, challenges and prospects of finger millet improvement as a guide for variety development and deployment with enhanced grain yield and nutritional contents. The first section describes global production status and yield gains, major production and productivity challenges in finger millet. This is followed by an in‐depth presentation on breeding and genetic progress on variety development with improved agronomic and nutritional quality traits, drought and salinity tolerance, and fungal diseases, weeds and insect pest resistance. Further, the review summarized finger millet's genetic and genomic resources, reference genomes, whole genome re‐sequencing and transcriptomics of finger millet technologies, genetic engineering and genome editing and their integration with conventional breeding methods for variety design with desired end‐use traits. The review provides foundational information to expedite the development of new‐generation finger millet cultivars with desirable product profiles, including high grain yield potential, early maturity, desirable seed colour, compact head type, food and feed nutrients quality and high marketability through modern breeding approaches.

show abstract

“…Representative subsets in the form of core or mini core collections (Brown, 1989;Upadhyaya and Ortiz, 2001) have been suggested as a gateway to enhanced utilization of diverse germplasm in crop improvement. Assessing population structure and diversity based on morpho-agronomic and DNA markers combined with appropriate statistical analysis group the germplasm pools into distinct clusters, while DNA markers assessment also provide allelic variation and richness to identify germplasm with specific alleles conferring positive performance (Backiyalakshmi et al, 2021;Sicilia et al, 2022).…”

Section: Diversity Assessment and Agronomically Beneficial Germplasm ...mentioning

confidence: 99%

Exploiting genetic and genomic resources to enhance productivity and abiotic stress adaptation of underutilized pulses

Dwivedi,

Chapman,

Abberton

et al. 2023

Front. Genet.

View full text Add to dashboard Cite

Underutilized pulses and their wild relatives are typically stress tolerant and their seeds are packed with protein, fibers, minerals, vitamins, and phytochemicals. The consumption of such nutritionally dense legumes together with cereal-based food may promote global food and nutritional security. However, such species are deficient in a few or several desirable domestication traits thereby reducing their agronomic value, requiring further genetic enhancement for developing productive, nutritionally dense, and climate resilient cultivars. This review article considers 13 underutilized pulses and focuses on their germplasm holdings, diversity, crop-wild-crop gene flow, genome sequencing, syntenic relationships, the potential for breeding and transgenic manipulation, and the genetics of agronomic and stress tolerance traits. Recent progress has shown the potential for crop improvement and food security, for example, the genetic basis of stem determinacy and fragrance in moth bean and rice bean, multiple abiotic stress tolerant traits in horse gram and tepary bean, bruchid resistance in lima bean, low neurotoxin in grass pea, and photoperiod induced flowering and anthocyanin accumulation in adzuki bean have been investigated. Advances in introgression breeding to develop elite genetic stocks of grass pea with low β-ODAP (neurotoxin compound), resistance to Mungbean yellow mosaic India virus in black gram using rice bean, and abiotic stress adaptation in common bean, using genes from tepary bean have been carried out. This highlights their potential in wider breeding programs to introduce such traits in locally adapted cultivars. The potential of de-domestication or feralization in the evolution of new variants in these crops are also highlighted.

show abstract

Genome-Wide Assessment of Population Structure and Genetic Diversity of the Global Finger Millet Germplasm Panel Conserved at the ICRISAT Genebank

Cited by 6 publications

References 71 publications

Genome-wide association analyses of agronomic traits and Striga hermonthica resistance in pearl millet

Genome-wide association analyses of agronomic traits and Striga hermonthica resistance in pearl millet

Finger millet (Eleusine coracana) improvement: Challenges and prospects—A review

Exploiting genetic and genomic resources to enhance productivity and abiotic stress adaptation of underutilized pulses

Contact Info

Product

Resources

About