scholarly journals Genetic Contribution of Ningmai 9 Wheat to Its Derivatives Evaluated by Using SNP Markers

2016 ◽  
Vol 2016 ◽  
pp. 1-6 ◽  
Author(s):  
Peng Jiang ◽  
Ping-Ping Zhang ◽  
Xu Zhang ◽  
Hong-Xiang Ma
Keyword(s):  
Wheat Variety ◽  
Wheat Breeding ◽  
Snp Markers ◽  
Neighbor Joining ◽  
Similarity Coefficients ◽  
Phenotypic Difference ◽  
Allele Ratio ◽  
Yield Quality ◽  
Chromosome Regions ◽  
Founder Parent

Founder parent usually plays an important role in wheat breeding. Ningmai 9 is a soft wheat variety with good performance in yield, quality, and resistance to wheat disease. Therefore it serves as an important commercial variety and founder parent in middle and lower Yangtze River of China. To date, 20 new cultivars have been developed from Ningmai 9 and released to wheat production in the last 10 years. In this study, the 90K iSELECT ILLUMINA chip was used to analyze the genotype of Ningmai 9 and its 17 derivatives. The genetic similarity coefficients between Ningmai 9 and its derivatives were more than 0.7 except for Yangfumai 4. Neighbor-Joining analysis showed that Yangfumai 4 had the largest genetic distance from Ningmai 9 in all derivatives. There was a great difference for the same allele ratio in either derivatives or chromosomes, though the average values of the same allele ratio in genomes A, B, and D were close to each other. The phenotypic difference in Ningmai 9, Ningmai 13, and Yangfumai 4 was consistent with their difference in genetic background by comparing previous reported QTLs. Some hot chromosome regions were found and might be used for marker assisted selection in wheat breeding.

scholarly journals Lr19 Resistance in Wheat Becomes Susceptible to Puccinia triticina in India

Plant Disease ◽  
2005 ◽  
Vol 89 (12) ◽  
pp. 1360-1360 ◽  
Author(s):  
S. C. Bhardwaj ◽  
M. Prashar ◽  
S. Kumar ◽  
S. K. Jain ◽  
D. Datta
Keyword(s):  
Leaf Rust ◽  
Wheat Variety ◽  
Puccinia Triticina ◽  
Triticum Aestivum L ◽  
Wheat Breeding ◽  
Adult Plant ◽  
Distribution Data ◽  
Agropyron Elongatum ◽  
Peninsular India ◽  
Slow Rusting

Lr19, a resistance gene originally transferred from Agropyron elongatum to wheat (Triticum aestivum L.), has remained effective worldwide against leaf rust (Puccinia triticina Eriks.) except in Mexico (1). This report records a new pathotype of P. triticina virulent on Lr19 from India. From 2003 to 2004, 622 wheat leaf rust samples from 14 states were subjected to pathotype analysis. Samples were established on susceptible wheat cv. Agra Local, and pathotypes were identified on three sets of differentials following binomial nomenclature (3). Virulence on Lr19 (Agatha T4 line) was observed in approximately 2% of samples. These samples were picked from Lr19 (NIL), cvs. Ajit, Lal Bahadur, Local Red, Lok1, and Nirbhay from Karnataka and Gujarat states. All Lr19 virulent isolates were identical. The reference culture is being maintained on susceptible wheat cv. Agra Local and has also been put under long-term storage in a national repository at Flowerdale. From 2004 to 2005, this pathotype was detected in 6.3% of samples from central and peninsular India. There is no wheat variety with Lr19 under cultivation in India, however, it is being used in wheat breeding programs targeted at building resistance against leaf and stem rusts. NIL's Lr19/Sr25 (LC25) and Lr19/Sr25 (82.2711) were also susceptible to this isolate, whereas Lr19/Sr25 (spring accession) was resistant. The new isolate, designated as 253R31 (77-8), appears to be close to the pathotype 109R31 (4) with additional virulence for Lr19. The avirulence/virulence formula of pathotype 253R31 is Lr9, 23, 24, 25, 26, 27+31, 28, 29, 32, 36, 39, 41, 42, 43, 45/Lr1, 2a, 2b, 2c, 3, 10, 11, 12, 13, 14a, 14b, 14ab, 15, 16, 17, 18, 20, 21, 22a, 22b, 30, 33, 34, 35, 37, 38, 40, 44, 48, and 49. To our knowledge, this is the first report of virulence on Lr19 from two states of India. On international rust differentials, it is designated as TGTTQ (2), and is different from CBJ/QQ (1), the other isolate reported virulent on Lr19 from Mexico. The Mexican isolate is avirulent on Lr1, 2a, 2b, 2c, 3ka, 16, 21, and 30 to which the Indian isolate is virulent. However, both isolates are avirulent on Lr9, 24, 26, 36, and Lr42. Among the wheat cultivars identified during the last 6 years, HD2824, HD2833, HD2864, HI1500, HS375, HUW 510, HW 2044, HW 5001, Lok 45, MACS 6145, MP4010, NW 2036, PBW 443, PBW 498, PBW 502, PBW 524, Raj 4037, UP 2565, VL 804, VL 829, and VL 832 and lines of wheat possessing Lr9, Lr23, Lr24, and Lr26 showed resistance to this pathotype. PBW 343, which occupies more than 5 million ha in India, is also resistant to this pathotype along with PBW 373. An integrated strategy using a combination of diverse resistance genes, deployment of cultivars by using pathotype distribution data, slow rusting, and adult plant resistance is in place to curtail selection of new pathotypes and prevent rust epiphytotics. References: (1) J. Huerta-Espino and R. P. Singh. Plant Dis. 78:640,1994. (2) D. V. Mc Vey et al. Plant Dis. 88:271, 2004. (3) S. Nagarajan et al. Curr. Sci. 52:413, 1983. (4) S. K. Nayar et al. Curr. Sci. 44:742, 1975.

scholarly journals Population Structure and Genetic Diversity of Two-Rowed Barley Accessions from Kazakhstan Based on SNP Genotyping Data

Plants ◽  
2021 ◽  
Vol 10 (10) ◽  
pp. 2025
Author(s):  
Shyryn Almerekova ◽  
Yuliya Genievskaya ◽  
Saule Abugalieva ◽  
Kazuhiro Sato ◽  
Yerlan Turuspekov
Keyword(s):  
Population Structure ◽  
Heading Date ◽  
Snp Markers ◽  
Principal Coordinate Analysis ◽  
Neighbor Joining ◽  
Nucleotide Polymorphism ◽  
Single Nucleotide ◽  
Breeding Programs ◽  
Polymorphic Snps ◽  
Ancestral Node

The genetic relationship and population structure of two-rowed barley accessions from Kazakhstan were assessed using single-nucleotide polymorphism (SNP) markers. Two different approaches were employed in the analysis: (1) the accessions from Kazakhstan were compared with barley samples from six different regions around the world using 1955 polymorphic SNPs, and (2) 94 accessions collected from six breeding programs from Kazakhstan were studied using 5636 polymorphic SNPs using a 9K Illumina Infinium assay. In the first approach, the neighbor-joining tree showed that the majority of the accessions from Kazakhstan were grouped in a separate subcluster with a common ancestral node; there was a sister subcluster that comprised mainly barley samples that originated in Europe. The Pearson’s correlation analysis suggested that Kazakh accessions were genetically close to samples from Africa and Europe. In the second approach, the application of the STRUCTURE package using 5636 polymorphic SNPs suggested that Kazakh barley samples consisted of five subclusters in three major clusters. The principal coordinate analysis plot showed that, among six breeding origins in Kazakhstan, the Krasnovodopad (KV) and Karaganda (KA) samples were the most distant groups. The assessment of the pedigrees in the KV and KA samples showed that the hybridization schemes in these breeding stations heavily used accessions from Ethiopia and Ukraine, respectively. The comparative analysis of the KV and KA samples allowed us to identify 214 SNPs with opposite allele frequencies that were tightly linked to 60 genes/gene blocks associated with plant adaptation traits, such as the heading date and plant height. The identified SNP markers can be efficiently used in studies of barley adaptation and deployed in breeding projects to develop new competitive cultivars.

George Douglas Hutton Bell. 18 October 1905 – 27 June 1993

2004 ◽  
Vol 50 ◽  
pp. 35-38
Author(s):  
Ralph Riley ◽  
John Enderby
Keyword(s):  
Plant Breeding ◽  
Agricultural Research ◽  
Wheat Variety ◽  
Barley Grain ◽  
Wheat Breeding ◽  
Malting Quality ◽  
Free Standing ◽  
Cambridge University ◽  
Plant Breeding Institute ◽  
The Government

Douglas Bell was the doyen of British plant breeders. He worked to turn what was previously a craft that made some use of science into a science–based technology.Having taken a first–class honours degree at the University College of Wales (Bangor), Bell went to the Cambridge University Plant Breeding Institute in 1928. There he worked under the supervision of F. L. (later Sir Frank) Engledow (FRS 1946). His PhD research concerned genetic variability in barley varieties, and barley remained his principal interest henceforth. At the height of his powers Bell was able rapidly to assess the agricultural potential of wide arrays of genetically distinct lines. This was based on keen observation and the ability to discriminate among many characteristics simultaneously. It often seemed like intuition. At the same time he was a keen judge of the malting quality of barley grain and was often called on to exercise his skill in competitions.After completing the PhD requirements, Bell continued to work with Engledow in the Cambridge School of Agriculture, first as a demonstrator and then as a lecturer. Generations of students praised the clarity of his lectures. From Engledow he inherited an interest in the components of yield in cereals. Starting with the number of ears per plant, spikelets per ear, grains per spikelet and grain weight he became interested in the physiology of yield. This subsequently led him to promote attempts to use physiological characteristics to predict yielding ability in the selection of new varieties. Also during this period Bell assisted Engledow in wheat breeding, work that resulted in the development of the breadmaking winter–wheat variety Holdfast.Bell's leadership in plant breeding came to its full realization when he became Director of the Plant Breeding Institute (PBI), Cambridge, in 1947. The government had decided in the immediate postwar period to expand agricultural research in the UK. Numbers of free–standing research establishments were created with the general responsibility for them vested in the Agricultural Research Council. Under these arrangements the PBI was separated from Cambridge University. As Director, Bell together with the governing body set a policy for the institute. It was then his responsibility to choose a site (Trumpington, Cambridge), recruit a staff and plan the buildings and facilities including the farm.

scholarly journals Genetic Architecture of End-use Quality Traits in Soft White Winter Wheat

2021 ◽  
Author(s):  
Meriem Aoun ◽  
Arron H. Carter ◽  
Craig F. Morris ◽  
Alecia M. Kiszonas
Keyword(s):  
Winter Wheat ◽  
Genetic Architecture ◽  
The United States ◽  
Wheat Breeding ◽  
Snp Markers ◽  
Complex Nature ◽  
Quality Trait ◽  
Quality Traits ◽  
Breeding Lines ◽  
End Use

Abstract Background:Genetic improvement of end-use quality is an important objective in wheat breeding programs to meet the requirements of grain markets, millers, and bakers. However, end-use quality phenotyping is expensive and laborious thus, testing is often delayed until advanced generations. To better understand the underlying genetic architecture of end-use quality traits, we investigated the phenotypic and genotypic structure of 14 end-use quality traits in 672 advanced soft white winter wheat breeding lines and cultivars adapted to the Pacific Northwest region of the United States.Results:This collection of germplasm had continuous distributions for the 14 end-use quality traits with industrially significant differences for all traits. The breeding lines and cultivars were genotyped using genotyping-by-sequencing and 40,518 SNP markers were used for association mapping (GWAS). The GWAS identified 178 marker-trait associations (MTAs) distributed across all wheat chromosomes. A total of 40 MTAs were positioned within genomic regions of previously discovered end-use quality genes/QTL. Among the identified MTAs, 12 markers had large effects and thus could be considered in the larger scheme of selecting and fixing favorable alleles in breeding for end-use quality in soft white wheat germplasm. We also identified 15 loci (two of them with large effects) that can be used for simultaneous breeding of more than a single end-use quality trait. The results highlight the complex nature of the genetic architecture of end‑use quality, and the challenges of simultaneously selecting favorable genotypes for a large number of traits. This study also illustrates that some end-use quality traits were mainly controlled by a larger number of small-effect loci and may be more amenable to alternate selection strategies such as genomic selection.Conclusions:In conclusion, a breeder may be faced with the dilemma of balancing genotypic selection in early generation(s) versus costly phenotyping later on.

scholarly journals Features of the formation of productivity signs of the yielding capacity in winter wheat varieties under different growing conditions

2020 ◽  
Vol 27 ◽  
pp. 29-34
Author(s):  
V. V. Bazalii ◽  
I. V. Boichuk ◽  
Ya. O. Lavrynenko ◽  
H. H. Bazalii ◽  
Ye. O. Domaratskyi ◽  
...  
Keyword(s):  
Winter Wheat ◽  
Wheat Variety ◽  
Wheat Breeding ◽  
High Plasticity ◽  
Wheat Varieties ◽  
Comparison Research ◽  
Yield Structure ◽  
Growing Conditions ◽  
High Degree ◽  
Winter Wheat Varieties

Aim. Further improvement and application of modern methods of wheat breeding of different types of development for adaptiveness caused by change in the character of manifestation of limiting environmental factors under conditions of the Southern Ukrainian Steppe. Methods. Field experiment, selection and genetic, calculation and comparison research methods were used. Wheat varieties of different genetic and ecological origin under different growing conditions were examined. Results. Analysis of the parameters of plasticity and stability of the elements of the yield structure in winter wheat varieties under different growing conditions revealed that their variability depends on both genotype and ecological gradients. For instance, by the weight of grain from ears only the varieties Kirena and Yaroslavna were distinguished by a high reaction to changes in growing conditions (bi= 1,215 – 1,635) among the analyzed genotypes, the other varieties Askaniiska, Askaniiska Berehynia, Znakhidka odeska and Klarisa manifested quite high plasticity (bi= 0,454 – 0,816). There was an analogous situation in the formation of the number of grains per ear. It is necessary to highlight an important biological feature of these varieties which formed the highest actual productivity under late sowing conditions and different sowing rates when compared to other varieties and realized its potentialities better. Conclusions.The research determined that every wheat variety of different development types should be considered in the aspect of its reaction to different growing conditions and to the capability of realizing genetic potential in a particular ecological region. The results of estimation of adaptiveness potential determined a high degree of homeostaticity in the winter wheat varieties Askaniiska, Askaniiska Berehynia, Perlyna and the variety of an alternative type Klarisa. Keywords: winter wheat, varieties of alternative types, adaptiveness, plasticity, stability.

scholarly journals Mapping and Characterization of a Wheat Stem Rust Resistance Gene in Durum Wheat “Kronos”

2021 ◽  
Vol 12 ◽  
Author(s):  
Hongna Li ◽  
Lei Hua ◽  
Matthew N. Rouse ◽  
Tianya Li ◽  
Shuyong Pang ◽  
...  
Keyword(s):  
Durum Wheat ◽  
Resistance Genes ◽  
Stem Rust ◽  
Rust Resistance ◽  
Wheat Variety ◽  
Wheat Breeding ◽  
Stem Rust Resistance ◽  
Wheat Stem Rust ◽  
Seedling Resistance ◽  
Or Gene

Wheat stem (or black) rust is one of the most devastating fungal diseases, threatening global wheat production. Identification, mapping, and deployment of effective resistance genes are critical to addressing this challenge. In this study, we mapped and characterized one stem rust resistance (Sr) gene from the tetraploid durum wheat variety Kronos (temporary designation SrKN). This gene was mapped on the long arm of chromosome 2B and confers resistance to multiple virulent Pgt races, such as TRTTF and BCCBC. Using a large mapping population (3,366 gametes), we mapped SrKN within a 0.29 cM region flanked by the sequenced-based markers pku4856F2R2 and pku4917F3R3, which corresponds to 5.6- and 7.2-Mb regions in the Svevo and Chinese Spring reference genomes, respectively. Both regions include a cluster of nucleotide binding leucine-repeat (NLR) genes that likely includes the candidate gene. An allelism test failed to detect recombination between SrKN and the previously mapped Sr9e gene. This result, together with the similar seedling resistance responses and resistance profiles, suggested that SrKN and Sr9e may represent the same gene. We introgressed SrKN into common wheat and developed completely linked markers to accelerate its deployment in the wheat breeding programs. SrKN can be a valuable component of transgenic cassettes or gene pyramids that includes multiple resistance genes to control this devastating disease.

scholarly journals Genetic diversity analysis of a Flax (Linum usitatissimum L.) global collection

2020 ◽  
Author(s):  
Ahasanul Hoque ◽  
Jason D. Fiedler ◽  
Mukhlesur Rahman
Keyword(s):  
Genetic Diversity ◽  
Linkage Disequilibrium ◽  
Genetic Differentiation ◽  
Genetic Gain ◽  
Mantel Test ◽  
Snp Markers ◽  
Breeding Program ◽  
Neighbor Joining ◽  
Breeding Lines ◽  
The North

Abstract Background A sustainable breeding program requires a minimum level of germplasm diversity to provide varied options for the selection of new breeding lines. To maximize genetic gain of the North Dakota State University (NDSU) flax breeding program, we aimed to increase the genetic diversity of its parental stocks by incorporating diverse genotypes. For this purpose, we analyzed the genetic diversity, linkage disequilibrium, and population sub-structure of 350 globally-distributed flax genotypes with 6,200 SNP markers Results All the genotypes tested clustered into seven sub-populations (P1 to P7) based on the admixture model and the output of neighbor-joining (NJ) tree analysis and principal coordinate analysis were in line with that of structure analysis. The largest sub-population separation arose from a cluster of NDSU/American genotypes with Turkish and Asian genotypes. All sub-populations showed moderate genetic diversity (average H = 0.22 and I = 0.34). The pairwise F st comparison revealed a great degree of divergence ( F st > 0.25) between most of the combinations. A whole collection mantel test showed significant positive correlation (r = 0.30 and p < 0.01) between genetic and geographic distances, whereas it was non-significant for all sub-populations except P4 and P5 (r= 0.251, 0.349 respectively and p < 0.05). In the entire collection, the mean linkage disequilibrium was 0.03 and it decayed to its half maximum within < 21 kb distance. Conclusions To maximize genetic gain, hybridization between NDSU stock (P5) and Asian individuals (P6) are potentially the best option as genetic differentiation between them is highest ( F st > 0.50). In contrast, low genetic differentiation between P5 and P2 may enhance the accumulation of favorable alleles for oil and fiber upon crossing to develop dual purpose varieties. As each sub-population consists of many genotypes, a Neighbor-Joining tree assists to identify distantly related genotypes. These results also inform genotyping decisions for future association mapping studies to ensure the identification of a sufficient number of molecular markers to tag all linkage blocks.

scholarly journals Genetic Characterization and Genome-Wide Association Mapping for Stem Rust Resistance in Spring Bread Wheat

2021 ◽  
Author(s):  
Elias Shewabez ◽  
Endashaw Bekele ◽  
Admas Alemu ◽  
Laura Mugnai ◽  
Wuletaw Tadesse
Keyword(s):  
Stem Rust ◽  
Rust Resistance ◽  
Agricultural Research ◽  
Gene Diversity ◽  
Wheat Breeding ◽  
Snp Markers ◽  
Stem Rust Resistance ◽  
Phenotypic Analysis ◽  
Wheat Stem Rust ◽  
Spring Bread Wheat

Abstract Background Emerging wheat stem rust races has become a major threat to global wheat production. Finding additional loci responsible for resistance to these races and incorporating them into currently cultivated varieties is the most economical and environmentally sound strategy to combat this problem. Thus, this study aimed to characterize the genetic diversity of wheat and to identify the genetic loci conferring resistance to stem rust of wheat. To accomplish this study, 245 elite lines introduced from the International Center for Agricultural Research in the Dry Areas (ICARDA) were tested under natural stem rust pressure in the field at the Debre Zeit Agricultural Research Center, Ethiopia. The SNP marker data was retrieved from a 15K SNP wheat array. Association analysis was undertaken between SNP markers and best linear unbiased prediction (BLUP) value of the stem rust coefficient of infection (CI) using a mixed linear model. Results Phenotypic analysis revealed 46% of lines had a coefficient of infection (CI) between 0 to 19. An average 0.38 in Nei’s gene diversity, 0.20 in polymorphism information content, and 0.71 in major allele frequency of the whole genome were identified.A total of 46 marker-trait associations (MTAs) that were encompassed within 13 quantitative trait loci (QTL) on chromosomes 1B, 3A, 3B, 4A, 4B, and 5A were found for CI. Four major QTLs with –log10 (p) ≥ 3 (EWYP1B.1, EWYP1B.3, EWYP1B.4, and EWYP1B.5) were identified on chromosome 1B. Conclusions This study contributes several novel markers associated with stem rust resistance. These can be further facilitating durable rust resistance development through marker-assisted selection. The resistant wheat genotypes identified in this study are recommended to be used in the national wheat breeding programs to improve stem rust resistance. Key words: markers; Puccinia graminis f. sp. tritici; QTL

scholarly journals Genetic Diversity and Association Analysis for Solvent Retention Capacity in the Accessions Derived from Soft Wheat Ningmai 9

2017 ◽  
Vol 2017 ◽  
pp. 1-8 ◽  
Author(s):  
Peng Jiang ◽  
Ping-Ping Zhang ◽  
Xu Zhang ◽  
Hong-Xiang Ma
Keyword(s):  
Quality Evaluation ◽  
First Generation ◽  
Second Generation ◽  
Wheat Breeding ◽  
Soft Wheat ◽  
Neighbor Joining ◽  
Retention Capacity ◽  
Solvent Retention ◽  
First And Second Generation ◽  
Solvent Retention Capacity

Solvent retention capacity (SRC) test is an effective method for quality evaluation of soft wheat. Ningmai 9 is a founder in soft wheat breeding. The SRC and genotype of Ningmai 9 and its 117 derivatives were tested. Association mapping was employed to identify the quantitative trait loci (QTL) associated with SRCs. Ningmai 9 had the allele frequency of 75.60% and 67.81% to its first- and second-generation derivatives, respectively, indicating higher contribution than theoretical expectation. Neighbor-joining cluster based on the genotyping data showed that Ningmai 9 and most of its first-generation derivatives were clustered together, whereas its second-generation derivatives were found in another group. The variation coefficients of SRCs in the derivatives ranged from 5.35% to 8.63%. A total of 29 markers on 13 chromosomes of the genome were associated with the SRCs. There were 6 markers associated with more than one SRC or detected in two years. The results suggested that QTL controlling SRCs in Ningmai 9 might be different from other varieties. Markers Xgwm44, Xbarc126, Xwmc790, and Xgwm232 associated with SRCs in Ningmai 9 might be used for quality improvement in soft wheat breeding.

A linked SNP marker to genotype Fr-B2 in wheat

2018 ◽  
Vol 69 (9) ◽  
pp. 859
Author(s):  
H. A. Eagles ◽  
J. Hyles ◽  
Jayne Wilson ◽  
Karen Cane ◽  
K. L. Forrest ◽  
...  
Keyword(s):  
Triticum Aestivum L ◽  
Frost Tolerance ◽  
Large Deletion ◽  
Wheat Breeding ◽  
Snp Markers ◽  
Breeding Lines ◽  
Specific Pcr ◽  
Chromosome 5B ◽  
Allele Specific ◽  
Specific Pcr Assay

Fr-B2 is a complex locus on chromosome 5B that affects frost tolerance, days to heading, grain yield and probably other traits of commercial importance in wheat (Triticum aestivum L.). It interacts epistatically with other major genes, especially VRN1. There are two known alleles of Fr-B2: an intact, wild-type allele, and an allele with a large deletion. Published methods for identifying these alleles are slow and expensive, making the development of a high-throughput, co-dominant SNP (single-nucleotide polymorphism) marker highly desirable, especially for commercial wheat breeding. A diverse panel of cultivars and breeding lines was characterised for SNPs and alleles of Fr-B2. Four SNP markers co-segregated as a haplotype block with Fr-B2 across unrelated cultivars and related backcrosses differing for alleles of Fr-B2. A robust KASP (Kompetitive allele-specific PCR) assay was developed for one of the SNPs, KASP_IWB26333, which should facilitate the inclusion of Fr-B2 on genotyping platforms for breeding and research.

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