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Genome analyses reveal population structure and a purple stigma color gene candidate in finger millet

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Relation http://oar.icrisat.org/12339/
https://www.nature.com/articles/s41467-023-38915-6
https://doi.org/10.1038/s41467-023-38915-6
 
Title Genome analyses reveal population structure and a purple stigma color gene candidate in finger millet
 
Creator Devos, K M
Qi, P
Bahri, B A
Gimode, D M
Jenike, K
Manthi, S J
Lule, D
Lux, T
Martinez-Bello, L
Pendergast IV, T H
Plott, C
Saha, D
Sidhu, G S
Sreedasyam, A
Wang, X
Wang, H
Wright, H
Zhao, J
Deshpande, S P
Villiers, S de
Dida, M M
Grimwood, J
Jenkins, J
Lovell, J
Mayer, K F X
Mneney, E E
Ojulong, H F
Schatz, M C
Schmutz, J
Song, B
Tesfaye, K
Odeny, D A
 
Subject Agriculture
Finger Millet
Genetics and Genomics
 
Description Finger millet is a key food security crop widely grown in eastern Africa, India and Nepal. Long considered a ‘poor man’s crop’, finger millet has regained attention over the past decade for its climate resilience and the nutritional qualities of its grain. To bring finger millet breeding into the 21st century, here we present the assembly and annotation of a chromosome-scale reference genome. We show that this ~1.3 million years old allotetraploid has a high level of homoeologous gene retention and lacks subgenome dominance. Population structure is mainly driven by the differential presence of large wild segments in the pericentromeric regions of several chromosomes. Trait mapping, followed by variant analysis of gene candidates, reveals that loss of purple coloration of anthers and stigma is associated with loss-of-function mutations in the finger millet orthologs of the maize R1/B1 and Arabidopsis GL3/EGL3 anthocyanin regulatory genes. Proanthocyanidin production in seed is not affected by these gene knockouts.
 
Publisher Nature Publishing Group
 
Date 2023-06-21
 
Type Article
PeerReviewed
 
Format application/pdf
 
Language en
 
Rights cc_attribution
 
Identifier http://oar.icrisat.org/12339/1/Nature%20Communications_14_1-15_2023.pdf
Devos, K M and Qi, P and Bahri, B A and Gimode, D M and Jenike, K and Manthi, S J and Lule, D and Lux, T and Martinez-Bello, L and Pendergast IV, T H and Plott, C and Saha, D and Sidhu, G S and Sreedasyam, A and Wang, X and Wang, H and Wright, H and Zhao, J and Deshpande, S P and Villiers, S de and Dida, M M and Grimwood, J and Jenkins, J and Lovell, J and Mayer, K F X and Mneney, E E and Ojulong, H F and Schatz, M C and Schmutz, J and Song, B and Tesfaye, K and Odeny, D A (2023) Genome analyses reveal population structure and a purple stigma color gene candidate in finger millet. Nature Communications (TSI), 14. pp. 1-15. ISSN 2041-1723