scholarly journals Development of PCR-based markers and whole-genome selection model for anthracnose resistance in white lupin (Lupinus albus L.)

2020 ◽  
Vol 61 (4) ◽  
pp. 531-545
Author(s):  
Sandra Rychel-Bielska ◽  
Nelson Nazzicari ◽  
Piotr Plewiński ◽  
Wojciech Bielski ◽  
Paolo Annicchiarico ◽  
...  
Keyword(s):  
Genomic Selection ◽  
Lupinus Albus ◽  
Predictive Ability ◽  
Genotyping By Sequencing ◽  
High Specificity ◽  
White Lupin ◽  
Grain Legume ◽  
Anthracnose Resistance ◽  
Legume Crop ◽  
Molecular Tracking

Abstract White lupin (Lupinus albus L.) is a high-protein grain legume crop, grown since ancient Greece and Rome. Despite long domestication history, its cultivation remains limited, partly because of susceptibility to anthracnose. Only some late-flowering, bitter, low-yielding landraces from Ethiopian mountains displayed resistance to this devastating disease. The resistance is controlled by various genes, thereby complicating the breeding efforts. The objective of this study was developing tools for molecular tracking of Ethiopian resistance genes based on genotyping-by-sequencing (GBS) data, envisaging linkage mapping and genomic selection approaches. Twenty GBS markers from two major quantitative trait loci (QTLs), antr04_1/antr05_1 and antr04_2/antr05_2, were converted to PCR-based markers using assigned transcriptome sequences. Newly developed markers improved mapping resolution around both anthracnose resistance loci, providing more precise QTL estimation. PCR-based screening of diversified domesticated and primitive germplasm revealed the high specificity of two markers for the antr04_1/antr05_1 locus (TP222136 and TP47110) and one for the antr04_2/antr05_2 locus (TP338761), highlighted by simple matching coefficients of 0.96 and 0.89, respectively. Moreover, a genomic selection approach based on GBS data of a recombinant inbred line mapping population was assessed, providing an average predictive ability of 0.56. These tools can be used for preselection of candidate white lupin germplasm for anthracnose resistance assays.

Overcoming the barriers of combining early flowering and anthracnose resistance in white lupin (Lupinus albus L.) for the Northern Agricultural Region of Western Australia

2013 ◽  
Vol 64 (9) ◽  
pp. 914 ◽  
Author(s):  
Kedar Nath Adhikari ◽  
Geoff Thomas ◽  
Dean Diepeveen ◽  
Richard Trethowan
Keyword(s):  
Western Australia ◽  
Lupinus Albus ◽  
Early Flowering ◽  
White Lupin ◽  
Grain Legume ◽  
New Variety ◽  
Agricultural Region ◽  
Anthracnose Resistance ◽  
Legume Crop ◽  
Lupinus Albus L

White lupin (Lupinus albus L.) is an important grain legume crop in Australia. The anthracnose incursion in the mid-1990s wiped out the white lupin industry in Western Australia (WA). Since then, incorporation of anthracnose resistance has been a major focus in white lupin breeding. After a series of experiments and targeted breeding in WA, high-yielding anthracnose-resistant genotypes were developed. One of these lines, Amira, was released in 2012 as a replacement for the then-benchmark variety Andromeda. Amira is high-yielding and early-maturing and it has substantially improved resistance to anthracnose compared with Andromeda. Its yield and grain quality are similar to Kiev Mutant and it will be suitable for growing in parts of the Northern Agricultural Region of WA where anthracnose risk is moderate to low. With the adoption of this new variety, reliable production of white lupin can recommence in WA. The growing season in WA is characterised by terminal drought, and early flowering is as important as anthracnose resistance. However, combining these traits was difficult and their combination was not achieved at a desired level in earlier work. The incorporation of the early-flowering trait from a different genetic source from France demonstrated that it is possible to combine these traits at an appropriate level. There was no genetic linkage between the two traits, and consequently, new genotypes with earlier phenology and higher levels of resistance than Amira were developed. The combination of early flowering and anthracnose resistance represents a breakthrough that will significantly improve the adaptation and profitability of white lupin production in WA.

scholarly journals The First Genetic and Comparative Map of White Lupin (Lupinus albus L.): Identification of QTLs for Anthracnose Resistance and Flowering Time, and a Locus for Alkaloid Content

DNA Research ◽  
2007 ◽  
Vol 14 (2) ◽  
pp. 59-70 ◽  
Author(s):  
Huyen T. T. Phan ◽  
Simon R. Ellwood ◽  
Kedar Adhikari ◽  
Matthew N. Nelson ◽  
Richard P. Oliver
Keyword(s):  
Flowering Time ◽  
Lupinus Albus ◽  
Alkaloid Content ◽  
White Lupin ◽  
Anthracnose Resistance ◽  
Comparative Map ◽  
Lupinus Albus L

scholarly journals Predictive ability of genomic selection models in a multi-population perennial ryegrass training set using genotyping-by-sequencing

2017 ◽  
Vol 131 (3) ◽  
pp. 703-720 ◽  
Author(s):  
Marty J. Faville ◽  
Siva Ganesh ◽  
Mingshu Cao ◽  
M. Z. Zulfi Jahufer ◽  
Timothy P. Bilton ◽  
...  
Keyword(s):  
Genomic Selection ◽  
Perennial Ryegrass ◽  
Predictive Ability ◽  
Genotyping By Sequencing ◽  
Training Set ◽  
Selection Models

scholarly journals A qPCR Assay for the Fast Detection and Quantification of Colletotrichum lupini

Plants ◽  
2021 ◽  
Vol 10 (8) ◽  
pp. 1548
Author(s):  
Tim Kamber ◽  
Nachelli Malpica-López ◽  
Monika M. Messmer ◽  
Thomas Oberhänsli ◽  
Christine Arncken ◽  
...  
Keyword(s):  
Lupinus Albus ◽  
Qpcr Assay ◽  
White Lupin ◽  
Infected Seed ◽  
Legume Crop ◽  
Mother Plants ◽  
Lupin Seeds ◽  
Infection Source ◽  
Colletotrichum Lupini ◽  
Detection And Quantification

White lupin (Lupinus albus) represents an important legume crop in Europe and other parts of the world due to its high protein content and potential for low-input agriculture. However, most cultivars are susceptible to anthracnose caused by Colletotrichum lupini, a seed- and air-borne fungal pathogen that causes severe yield losses. The aim of this work was to develop a C. lupini-specific quantitative real-time TaqMan PCR assay that allows for quick and reliable detection and quantification of the pathogen in infected seed and plant material. Quantification of C. lupini DNA in dry seeds allowed us to distinguish infected and certified (non-infected) seed batches with DNA loads corresponding to the disease score index and yield of the mother plants. Additionally, C. lupini DNA could be detected in infected lupin shoots and close to the infection site, thereby allowing us to study the disease cycle of this hemibiotrophic pathogen. This qPCR assay provides a useful diagnostic tool to determine anthracnose infection levels of white lupin seeds and will facilitate the use of seed health assessments as a strategy to reduce the primary infection source and spread of this disease.

scholarly journals Genomic Predictive Ability for Foliar Nutritive Traits in Perennial Ryegrass

2019 ◽  
Vol 10 (2) ◽  
pp. 695-708 ◽  
Author(s):  
Sai Krishna Arojju ◽  
Mingshu Cao ◽  
M. Z. Zulfi Jahufer ◽  
Brent A. Barrett ◽  
Marty J. Faville
Keyword(s):  
Genomic Selection ◽  
Perennial Ryegrass ◽  
Nutritive Value ◽  
Prediction Models ◽  
Predictive Ability ◽  
Genotyping By Sequencing ◽  
Water Soluble ◽  
Soluble Carbohydrate ◽  
Training Set ◽  
Sib Families

Forage nutritive value impacts animal nutrition, which underpins livestock productivity, reproduction and health. Genetic improvement for nutritive traits in perennial ryegrass has been limited, as they are typically expensive and time-consuming to measure through conventional methods. Genomic selection is appropriate for such complex and expensive traits, enabling cost-effective prediction of breeding values using genome-wide markers. The aims of the present study were to assess the potential of genomic selection for a range of nutritive traits in a multi-population training set, and to quantify contributions of family, location and family-by-location variance components to trait variation and heritability for nutritive traits. The training set consisted of a total of 517 half-sibling (half-sib) families, from five advanced breeding populations, evaluated in two distinct New Zealand grazing environments. Autumn-harvested samples were analyzed for 18 nutritive traits and maternal parents of the half-sib families were genotyped using genotyping-by-sequencing. Significant (P < 0.05) family variance was detected for all nutritive traits and genomic heritability (h2g) was moderate to high (0.20 to 0.74). Family-by-location interactions were significant and particularly large for water soluble carbohydrate (WSC), crude fat, phosphorus (P) and crude protein. GBLUP, KGD-GBLUP and BayesCπ genomic prediction models displayed similar predictive ability, estimated by 10-fold cross validation, for all nutritive traits with values ranging from r = 0.16 to 0.45 using phenotypes from across two locations. High predictive ability was observed for the mineral traits sulfur (0.44), sodium (0.45) and magnesium (0.45) and the lowest values were observed for P (0.16), digestibility (0.22) and high molecular weight WSC (0.23). Predictive ability estimates for most nutritive traits were retained when marker number was reduced from one million to as few as 50,000. The moderate to high predictive abilities observed suggests implementation of genomic selection is feasible for most of the nutritive traits examined.

scholarly journals Insect assemblages and their preference for Lupinus albus and L. luteus

2018 ◽  
Vol 57 (1) ◽  
pp. 29-41
Author(s):  
I. Nikolova ◽  
N. Georgieva
Keyword(s):  
Crude Protein ◽  
Insect Pests ◽  
Lupinus Albus ◽  
Organic Production ◽  
Grain Legume ◽  
Similar Species ◽  
Insect Fauna ◽  
Legume Crop ◽  
Industry Study ◽  
First Time

AbstractWhile lupin has undergone extensive research to ascertain its suitability for growth as forage or grain legume crop, the present trend is for research to be centered on its applicability in the seed protein and oil industry. Study of the literature showed that no intensive study of the lupin insect fauna had been carried out in Bulgaria. The purpose of this study was to identify the insect assemblages associated with Lupinus albus and L. luteus, as well as the insect preference for them. Thrips sampling was made by the tapping-method, aphids were directly counted on the plants and the composition and population density of other species were recorded by sweepings. Insect fauna was studied for the first time in Bulgaria. The fauna was represented on L. albus by 64 species, belonging to eight orders, 28 families and 57 genera, including 23 beetles, 25 hemipteras, five thrips, three butterflies, three bees, one leaf aphid, two grasshoppers, one leafminer and one green lacewing. L. luteus had similar species composition but was less preferred by insects. The use of lupin cultivars with shorter and intense reproductive periods, with a lower content of crude protein and phosphorus, would give an environmentally friendly protection against insect pests, which would be suitable for an organic production system.

scholarly journals Genome-wide association study reveals white lupin candidate gene involved in anthracnose resistance

2022 ◽  
Author(s):  
Joris A. Alkemade ◽  
Nelson Nazzicari ◽  
Monika M. Messmer ◽  
Paolo Annicchiarico ◽  
Barbara Ferrari ◽  
...  
Keyword(s):  
Association Study ◽  
Candidate Gene ◽  
Genome Wide Association Study ◽  
Genome Wide Association ◽  
White Lupin ◽  
Grain Legume ◽  
Anthracnose Resistance ◽  
Anthracnose Disease ◽  
Genome Wide ◽  
A Genome

Abstract Key message GWAS identifies candidate gene controlling resistance to anthracnose disease in white lupin. Abstract White lupin (Lupinus albus L.) is a promising grain legume to meet the growing demand for plant-based protein. Its cultivation, however, is severely threatened by anthracnose disease caused by the fungal pathogen Colletotrichum lupini. To dissect the genetic architecture for anthracnose resistance, genotyping by sequencing was performed on white lupin accessions collected from the center of domestication and traditional cultivation regions. GBS resulted in 4611 high-quality single-nucleotide polymorphisms (SNPs) for 181 accessions, which were combined with resistance data observed under controlled conditions to perform a genome-wide association study (GWAS). Obtained disease phenotypes were shown to highly correlate with overall three-year disease assessments under Swiss field conditions (r > 0.8). GWAS results identified two significant SNPs associated with anthracnose resistance on gene Lalb_Chr05_g0216161 encoding a RING zinc-finger E3 ubiquitin ligase which is potentially involved in plant immunity. Population analysis showed a remarkably fast linkage disequilibrium decay, weak population structure and grouping of commercial varieties with landraces, corresponding to the slow domestication history and scarcity of modern breeding efforts in white lupin. Together with 15 highly resistant accessions identified in the resistance assay, our findings show promise for further crop improvement. This study provides the basis for marker-assisted selection, genomic prediction and studies aimed at understanding anthracnose resistance mechanisms in white lupin and contributes to improving breeding programs worldwide.

scholarly journals Intercropping Winter Lupin and Triticale Increases Weed Suppression and Total Yield

Agriculture ◽  
2020 ◽  
Vol 10 (8) ◽  
pp. 316
Author(s):  
Nicolas Carton ◽  
Christophe Naudin ◽  
Guillaume Piva ◽  
Guénaëlle Corre-Hellou
Keyword(s):  
Grain Yield ◽  
Competitive Ability ◽  
Lupinus Albus ◽  
Total Yield ◽  
Weed Suppression ◽  
High Yield ◽  
White Lupin ◽  
Grain Legume ◽  
Weed Biomass ◽  
Sole Cropping

Lupin (Lupinus sp.) produces protein-rich grains, but its adoption in cropping systems suffers from both its low competitive ability against weeds and its high yield variability. Compared with legume sole cropping, grain legume–cereal intercropping benefits include better weed suppression and higher yield and yield stability. However, the potential of enhancing crop competitive ability against weeds in additive winter grain legume–cereal intercrops is not well-known, and this potential in long crop cycles is even less studied. We studied how intercropping with a triticale (×Triticosecale) alters weed biomass and productivity of winter white lupin (Lupinus albus L.). The experimental setup consisted of eleven sites during a two-year period in western France. In each site-year, winter white lupin sole cropping was compared to winter white lupin-triticale intercropping in an additive sowing design. We found that intercropping reduced weed biomass at lupin flowering by an average of 63%. The rapid growth and high soil N acquisition of triticale compensated for the low competitive ability of lupin against weeds until lupin flowering. Competition from triticale in the intercrop reduced lupin grain yield (−34%), but intercropping produced a higher total grain yield (+37%) than did lupin sole cropping while maintaining the total protein grain yield.

scholarly journals Quantitative Control of Early Flowering in White Lupin (Lupinus albus L.)

2021 ◽  
Vol 22 (8) ◽  
pp. 3856
Author(s):  
Sandra Rychel-Bielska ◽  
Anna Surma ◽  
Wojciech Bielski ◽  
Bartosz Kozak ◽  
Renata Galek ◽  
...  
Keyword(s):  
Flowering Time ◽  
Association Studies ◽  
Lupinus Albus ◽  
Genotypic Diversity ◽  
Early Flowering ◽  
White Lupin ◽  
Genome Wide Association Studies ◽  
Interacting Protein ◽  
Major Qtls ◽  
Lupinus Albus L

White lupin (Lupinus albus L.) is a pulse annual plant cultivated from the tropics to temperate regions for its high-protein grain as well as a cover crop or green manure. Wild populations are typically late flowering and have high vernalization requirements. Nevertheless, some early flowering and thermoneutral accessions were found in the Mediterranean basin. Recently, quantitative trait loci (QTLs) explaining flowering time variance were identified in bi-parental population mapping, however, phenotypic and genotypic diversity in the world collection has not been addressed yet. In this study, a diverse set of white lupin accessions (n = 160) was phenotyped for time to flowering in a controlled environment and genotyped with PCR-based markers (n = 50) tagging major QTLs and selected homologs of photoperiod and vernalization pathway genes. This survey highlighted quantitative control of flowering time in white lupin, providing statistically significant associations for all major QTLs and numerous regulatory genes, including white lupin homologs of CONSTANS, FLOWERING LOCUS T, FY, MOTHER OF FT AND TFL1, PHYTOCHROME INTERACTING FACTOR 4, SKI-INTERACTING PROTEIN 1, and VERNALIZATION INDEPENDENCE 3. This revealed the complexity of flowering control in white lupin, dispersed among numerous loci localized on several chromosomes, provided economic justification for future genome-wide association studies or genomic selection rather than relying on simple marker-assisted selection.

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