Characterization of Domestication Loci Associated with Awn Development in Rice

Luong, Ngoc Ha; Balkunde, Sangshetty; Shim, Kyu-Chan; Adeva, Cheryl; Lee, Hyun‐Sook; Kim, Hyun-Jung; Ahn, Sang-Nag

doi:10.1186/s12284-022-00607-y

Cited by 3 publications

(2 citation statements)

References 30 publications

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“…Awn is quite vital in the wild, but its function is less beneficial under cultivation [24]. Even the loss of awn during the long cultivation history is considered beneficial [25]; [26].…”

Section: Figure 1 Variation On Grain Characteristics Of Rice Accessio...mentioning

confidence: 99%

Grain diversity of rice collection from South Sulawesi, Indonesia

Hidayatun,

Saputri,

Galurina

et al. 2024

IOP Conf. Ser.: Earth Environ. Sci.

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South Sulawesi province is among the Indonesia rice barns, which is expected to buffer the national rice supply. Although rice stock is mainly produced from high-yielding superior varieties, local germplasm is still the main basis for variety development. Local germplasm has been adapted to various agro-ecosystems and thus has potential as a genetic source for adaptation to climate change. This study was aimed at measuring the diversity of rice germplasm from South Sulawesi based on its grain characteristics. A total of 98 rice accessions that were conserved in the agricultural genebank were examined. Grain length, shape, color, and other grain-related characters were observed following the international standard descriptors for rice. NTSYS-PC software version 2.2 was used to perform clustering analysis. Rice collections from South Sulawesi showed diversity in their grain characteristics. The majority of seeds are awnless, have medium length, medium shape, and straw-colored lemmae-palea and attributed with medium-sized and straw-colored sterile lemmae, and the dehulled grain bran is predominantly white. The rice accessions can be grouped into eight clusters at a similarity level of 52%. This diversity and similarity information is important for germplasm management and utilization. However, due to the limited number of characters used, information from this study cannot yet be used as a basis for their management. More comprehensive characterization efforts need to be conducted in order to make this study more usable, both in supporting conservation and for their utilization

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“…Awn is quite vital in the wild, but its function is less beneficial under cultivation [24]. Even the loss of awn during the long cultivation history is considered beneficial [25]; [26].…”

Section: Figure 1 Variation On Grain Characteristics Of Rice Accessio...mentioning

confidence: 99%

Grain diversity of rice collection from South Sulawesi, Indonesia

Hidayatun,

Saputri,

Galurina

et al. 2024

IOP Conf. Ser.: Earth Environ. Sci.

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“…Indeed, wild rice has retained long awns for successful seed dispersal, but almost all modern cultivars exhibit the awnless phenotype ( Furuta et al., 2015 ). Consequently, the elimination of awns has been considered one of the key events in the process of plant domestication and cultivation ( Hua et al., 2015 ; Amarasinghe et al., 2020 ; Luong et al., 2022 ).…”

Section: Introductionmentioning

confidence: 99%

Redefining awn development in rice through the breeding history of Japanese awn reduction

Suganami,

Yoshida,

Yoshida

et al. 2024

Front. Plant Sci.

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The study challenges the conventional understanding of awn loss as a domestication syndrome, showing instead that many awned varieties continued to be widely grown in Japan until the early twentieth century and that selection for awn reduction was active at that time, demonstrating that awn loss is not a domestication syndrome but “a trait that emerged during crop improvement”. Although selection for awnless mutants was carried out independently using different types of awned cultivars in the early twentieth century in Japan, awn loss was caused by the mutation in OsEPFL1. This suggests that a single mutant haplotype of OsEPFL1 was conserved in the genomes of different cultivars and subsequently selected within each line to meet the demand for awnless varieties. The study also conducts phylogenetic analyses of EPFL1 in 48 grass plants, revealing its unique involvement in awn formation in rice while potentially playing a different role in the domestication of other grass plants. Finally, an attempt is made to isolate an awn-forming gene that has not been identified from the awned rice cultivar “Omachi”, which is still cultivated in Japan. The results presented in this paper provide a new perspective on domestication against the conventional understanding of awn development, shedding light on its potential as a useful organ for breeding to mitigate environmental stress.

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Development and characterization of a sorghum multi-parent advanced generation intercross (MAGIC) population for capturing diversity among seed parent gene pool

Kumar

Boatwright

Brenton

et al. 2023

G3: Genes, Genomes, Genetics

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Multi-parent advanced generation inter-cross (MAGIC) populations improve the precision of quantitative trait loci (QTL) mapping over biparental populations by incorporating increased diversity and opportunities to reduce linkage disequilibrium among variants. Here, we describe the development of a MAGIC B-Line (MBL) population from an inter-cross among four diverse founders of grain sorghum [Sorghum bicolor (L.) Moench] across different races (kafir, guinea, durra, and caudatum). These founders were selected based on genetic uniqueness and several distinct qualitative features including panicle architecture, plant color, seed color, endosperm texture, and awns. A whole set of MBL (708 F6) recombinant inbred lines (RILs) along with their founders were genotyped using Diversity Arrays Technology (DArTseq) and 5,683 single nucleotide polymorphisms (SNPs) were generated. A genetic linkage map was constructed using a set of polymorphic, quality-filtered markers (2,728 SNPs) for QTL interval-mapping. For population validation, three traits (seed color, plant color and awns) were used for QTL mapping and genome-wide association study (GWAS). QTL mapping and GWAS identified four major genomic regions located across three chromosomes (Chr1, Chr3, and Chr6) that correspond to known genetic loci for the targeted traits. Founders of this population consist of the fertility maintainer (A/B line) gene pool and derived MBL lines could serve as female/seed parents in the cytoplasmic male sterility (CMS) breeding system. The MBL population will serve as a unique genetic and genomic resource to better characterize the genetics of complex traits and potentially identify superior alleles for crop improvement efforts to enrich the seed parent gene pool.

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Characterization of Domestication Loci Associated with Awn Development in Rice

Cited by 3 publications

References 30 publications

Grain diversity of rice collection from South Sulawesi, Indonesia

Grain diversity of rice collection from South Sulawesi, Indonesia

Redefining awn development in rice through the breeding history of Japanese awn reduction

Development and characterization of a sorghum multi-parent advanced generation intercross (MAGIC) population for capturing diversity among seed parent gene pool

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