Exploring green seed coat colour retention in Lentils by utilizing high-throughput digital imaging
Use high throughput phenotyping to measure harvested seeds with green seed coats as they age in order to explore genetic components behind the colour degradation as lentil seeds age.
Generate information to assist breeders in developing strategies for improving seed coat colour retention in green lentil.
Germplasm
Germplasm Genus |
Lens
|
---|---|
Germplasm Scientific Name |
Lens culinaris
|
Germplasm Collection |
LR-06 (1294M-23 x 1048-8R)
|
Green lentil is typically consumed whole; consequently, the colour of the seed coat is an important factor in determining its market value. However, green seed coat colour is not stable and tends to deteriorate towards dark brown over time. This reduces the desirability of the lentil seed and results in a lower market value. The purpose of this project was to generate information to assist breeders in developing strategies for improving seed coat colour retention in green lentil. The population used in this study (LR-06) consists of 160 recombinant inbred lentil lines (RILs) that were derived from a cross between two breeding lines: 1294m-23 and 1048-8R. The resulting progeny were grown in three replications, in two locations, during the summers of 2019, 2021, and 2022. Approximately 200 individual seeds from each plot were imaged using a high-throughput imaging device (BELT). Commission Internationale de l'Eclairage (CIE) L*a*b* scores were extracted from images using BELT’s accompanying software: PhenoSEED. The seeds were imaged at ≈6 months post-harvest for seed grown in 2022; ≈6 months, ≈12 months, and ≈18 months for seed harvested in 2021; and 18 months post-harvest for seeds grown in 2019. Mixed linear models were used to evaluate the predictability of seed coat colour quality (quantified using CIE L*a*b* scores), following aging, based on the initial screenings. The results of this study provide evidence that lentil seed coat colour quality, following aging, is predictable based on these initial screenings. Genotyping was performed using a legume single nucleotide polymorphism (SNP) chip in Australia and the genotypic data, combined with CIE L*a*b* scores, were used to perform quantitative trait locus (QTL) analysis. The results of QTL analysis provide evidence that seed coat colour quality is genetic and specific regions of the genome can be targeted during selection.
Attribution
Data Custodian |
Kirstin E Bett
|
---|---|
Collaborator |
|
Data Curator |
|
Research Organization |
Experiments
Use high throughput phenotyping to measure harvested seeds with green seed coats as they age in order to explore genetic components behind the colour degradation as lentil seeds age.
Associated Datasets
LR-06 BELT Dataset (Excel, TSV)
This dataset consists of all the measurements extracted by the PhenoSEED/BELT seed imaging system for "Fresh" (~6 months), "Mid" (~12 months) and "Old" (~18 months) seed originally grown in 2019, 2021 and 2022. This represents measurements for almost 100k individual seeds. The originally images are not available for download due to size. Each measurement extracted by PhenoSEED is described in this document: BELTdataDefinitions.pdf.
LR-06 Genetic Map (TSV)
This linkage map consists of 7 linkage groups and 1069 SNP-based genetic markers. The linkage groups were numbered according to the Lcu.2RBY genome assembly. This linkage map was developed by Rob Stonehouse. The genotypic data used to generate it is from the linked SNP Chip.
LR-06 Infinium SNP Chip (TSV; MD5SUM dc68d8eabe6c54cf80439e59558e6426)
This SNP chip was developed by Agriculture Victoria Research (AVR) with investment from GRDC using Infinium SNP chip array technology. The attached file is a simple genotype matrix reporting the results. These results were checked for quality within the GenomeStudio software provided by Illumina. For more information on how it was developed, click here.