Genomic and phenotypic characterization of finger millet indicates a complex diversification history Article Swipe
Jon Bančič
,
Damaris A. Odeny
,
Henry Ojulong
,
Samuel Manthi Josiah
,
Jaap Buntjer
,
R. Chris Gaynor
,
SP Hoad
,
Gregor Gorjanc
,
Ian K. Dawson
·
YOU?
·
· 2023
· Open Access
·
· DOI: https://doi.org/10.1002/tpg2.20392
YOU?
·
· 2023
· Open Access
·
· DOI: https://doi.org/10.1002/tpg2.20392
Advances in sequencing technologies mean that insights into crop diversification can now be explored in crops beyond major staples. We use a genome assembly of finger millet, an allotetraploid orphan crop, to analyze DArTseq single nucleotide polymorphisms (SNPs) at the whole and sub‐genome level. A set of 8778 SNPs and 13 agronomic traits was used to characterize a diverse panel of 423 landraces from Africa and Asia. Through principal component analysis (PCA) and discriminant analysis of principal components, four distinct groups of accessions were identified that coincided with the primary geographic regions of finger millet cultivation. Notably, East Africa, presumed to be the crop's origin, exhibited the lowest genetic diversity. The PCA of phenotypic data also revealed geographic differentiation, albeit with differing relationships among geographic areas than indicated with genomic data. Further exploration of the sub‐genomes A and B using neighbor‐joining trees revealed distinct features that provide supporting evidence for the complex evolutionary history of finger millet. Although genome‐wide association study found only a limited number of significant marker‐trait associations, a clustering approach based on the distribution of marker effects obtained from a ridge regression genomic model was employed to investigate trait complexity. This analysis uncovered two distinct clusters. Overall, the findings suggest that finger millet has undergone complex and context‐specific diversification, indicative of a lengthy domestication history. These analyses provide insights for the future development of finger millet.
Related Topics
Concepts
Biology
Domestication
Genome
Evolutionary biology
Single-nucleotide polymorphism
Genetics
Genetic diversity
Context (archaeology)
Quantitative trait locus
Genomics
Gene
Genotype
Sociology
Demography
Population
Paleontology
Metadata
- Type
- article
- Language
- en
- Landing Page
- https://doi.org/10.1002/tpg2.20392
- https://onlinelibrary.wiley.com/doi/pdfdirect/10.1002/tpg2.20392
- OA Status
- gold
- Cited By
- 9
- References
- 73
- Related Works
- 10
- OpenAlex ID
- https://openalex.org/W4388870078
All OpenAlex metadata
Raw OpenAlex JSON
- OpenAlex ID
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https://openalex.org/W4388870078Canonical identifier for this work in OpenAlex
- DOI
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https://doi.org/10.1002/tpg2.20392Digital Object Identifier
- Title
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Genomic and phenotypic characterization of finger millet indicates a complex diversification historyWork title
- Type
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articleOpenAlex work type
- Language
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enPrimary language
- Publication year
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2023Year of publication
- Publication date
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2023-11-20Full publication date if available
- Authors
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Jon Bančič, Damaris A. Odeny, Henry Ojulong, Samuel Manthi Josiah, Jaap Buntjer, R. Chris Gaynor, SP Hoad, Gregor Gorjanc, Ian K. DawsonList of authors in order
- Landing page
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https://doi.org/10.1002/tpg2.20392Publisher landing page
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https://onlinelibrary.wiley.com/doi/pdfdirect/10.1002/tpg2.20392Direct link to full text PDF
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YesWhether a free full text is available
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goldOpen access status per OpenAlex
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https://onlinelibrary.wiley.com/doi/pdfdirect/10.1002/tpg2.20392Direct OA link when available
- Concepts
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Biology, Domestication, Genome, Evolutionary biology, Single-nucleotide polymorphism, Genetics, Genetic diversity, Context (archaeology), Quantitative trait locus, Genomics, Gene, Genotype, Sociology, Demography, Population, PaleontologyTop concepts (fields/topics) attached by OpenAlex
- Cited by
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9Total citation count in OpenAlex
- Citations by year (recent)
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2025: 5, 2024: 4Per-year citation counts (last 5 years)
- References (count)
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73Number of works referenced by this work
- Related works (count)
-
10Other works algorithmically related by OpenAlex
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| abstract_inverted_index.geographic | 91, 118, 125 |
| abstract_inverted_index.identified | 85 |
| abstract_inverted_index.indicative | 213 |
| abstract_inverted_index.nucleotide | 36 |
| abstract_inverted_index.phenotypic | 114 |
| abstract_inverted_index.regression | 185 |
| abstract_inverted_index.sequencing | 3 |
| abstract_inverted_index.supporting | 148 |
| abstract_inverted_index.association | 160 |
| abstract_inverted_index.complexity. | 193 |
| abstract_inverted_index.components, | 78 |
| abstract_inverted_index.development | 226 |
| abstract_inverted_index.exploration | 133 |
| abstract_inverted_index.investigate | 191 |
| abstract_inverted_index.significant | 168 |
| abstract_inverted_index.characterize | 57 |
| abstract_inverted_index.cultivation. | 96 |
| abstract_inverted_index.discriminant | 74 |
| abstract_inverted_index.distribution | 177 |
| abstract_inverted_index.evolutionary | 153 |
| abstract_inverted_index.sub‐genome | 43 |
| abstract_inverted_index.technologies | 4 |
| abstract_inverted_index.associations, | 170 |
| abstract_inverted_index.domestication | 217 |
| abstract_inverted_index.genome‐wide | 159 |
| abstract_inverted_index.polymorphisms | 37 |
| abstract_inverted_index.relationships | 123 |
| abstract_inverted_index.sub‐genomes | 136 |
| abstract_inverted_index.allotetraploid | 29 |
| abstract_inverted_index.marker‐trait | 169 |
| abstract_inverted_index.diversification | 10 |
| abstract_inverted_index.differentiation, | 119 |
| abstract_inverted_index.diversification, | 212 |
| abstract_inverted_index.context‐specific | 211 |
| abstract_inverted_index.neighbor‐joining | 141 |
| cited_by_percentile_year.max | 98 |
| cited_by_percentile_year.min | 97 |
| corresponding_author_ids | https://openalex.org/A5061036582 |
| countries_distinct_count | 3 |
| institutions_distinct_count | 9 |
| corresponding_institution_ids | https://openalex.org/I133960621, https://openalex.org/I260719752, https://openalex.org/I4210153400, https://openalex.org/I98677209 |
| sustainable_development_goals[0].id | https://metadata.un.org/sdg/16 |
| sustainable_development_goals[0].score | 0.46000000834465027 |
| sustainable_development_goals[0].display_name | Peace, Justice and strong institutions |
| citation_normalized_percentile.value | 0.93416773 |
| citation_normalized_percentile.is_in_top_1_percent | False |
| citation_normalized_percentile.is_in_top_10_percent | False |