Dataset Information

Identification of quantitative trait loci associated with nitrogen use efficiency in winter wheat.

ABSTRACT: Maintaining winter wheat (Triticum aestivum L.) productivity with more efficient nitrogen (N) management will enable growers to increase profitability and reduce the negative environmental impacts associated with nitrogen loss. Wheat breeders would therefore benefit greatly from the identification and application of genetic markers associated with nitrogen use efficiency (NUE). To investigate the genetics underlying N response, two bi-parental mapping populations were developed and grown in four site-seasons under low and high N rates. The populations were derived from a cross between previously identified high NUE parents (VA05W-151 and VA09W-52) and a shared common low NUE parent, 'Yorktown.' The Yorktown × VA05W-151 population was comprised of 136 recombinant inbred lines while the Yorktown × VA09W-52 population was comprised of 138 doubled haploids. Phenotypic data was collected on parental lines and their progeny for 11 N-related traits and genotypes were sequenced using a genotyping-by-sequencing platform to detect more than 3,100 high quality single nucleotide polymorphisms in each population. A total of 130 quantitative trait loci (QTL) were detected on 20 chromosomes, six of which were associated with NUE and N-related traits in multiple testing environments. Two of the six QTL for NUE were associated with known photoperiod (Ppd-D1 on chromosome 2D) and disease resistance (FHB-4A) genes, two were reported in previous investigations, and one QTL, QNue.151-1D, was novel. The NUE QTL on 1D, 6A, 7A, and 7D had LOD scores ranging from 2.63 to 8.33 and explained up to 18.1% of the phenotypic variation. The QTL identified in this study have potential for marker-assisted breeding for NUE traits in soft red winter wheat.

SUBMITTER: Brasier K

PROVIDER: S-EPMC7039505 | biostudies-literature | 2020

REPOSITORIES: biostudies-literature

ACCESS DATA

Publications

Identification of quantitative trait loci associated with nitrogen use efficiency in winter wheat.

Brasier Kyle K Ward Brian B Smith Jared J Seago John J Oakes Joseph J Balota Maria M Davis Paul P Fountain Myron M Brown-Guedira Gina G Sneller Clay C Thomason Wade W Griffey Carl C

PloS one 20200224 2

Maintaining winter wheat (Triticum aestivum L.) productivity with more efficient nitrogen (N) management will enable growers to increase profitability and reduce the negative environmental impacts associated with nitrogen loss. Wheat breeders would therefore benefit greatly from the identification and application of genetic markers associated with nitrogen use efficiency (NUE). To investigate the genetics underlying N response, two bi-parental mapping populations were developed and grown in four ...[more]

PMID: 32092066

Similar Datasets

Project description:Accurate and timely nitrogen (N) scheduling requires knowledge of in-season crop N deficit. Therefore, understanding the association between crop growth and crop N demand during its growth period is imperative for fine-tuning N scheduling decisions to actual crop N demand and to enhance N use efficiency. The concept of the critical N dilution curve has been employed to assess and quantify the intensity and time of crop N deficit. However, research regarding the association between crop N deficit and N use efficiency in wheat is limited. The present study was carried out to determine whether there are relationships between the accumulated nitrogen deficit (Nand) and agronomic N use efficiency (AEN) as well as with its components (N fertilizer recovery efficiency (REN) and N fertilizer physiological efficiency (PEN)) of winter wheat and to explore the potential capacity of Nand for predicting AEN and its components. Data acquired from five variable N rates (0, 75, 150, 225, and 300 kg ha−1) field experiments using six winter wheat cultivars were used to establish and validate the relationships between Nand and AEN, REN, and PEN. The results indicated that plant N concentration in winter wheat was significantly affected by N application rates. Nand varied from −65.73 to 104.37 kg ha−1 after Feekes stage 6 under different N application rates. The AEN and its components were also affected by cultivars, N levels, seasons, and growth stages. A positive correlation was observed between Nand, AEN, and its components. Validation using an independent data set showed the robustness of the newly developed empirical models to accurately predict AEN, REN, and PEN with an RMSE of 3.43 kg kg−1, 4.22%, and 3.67 kg kg−1 and RRMSE of 17.53%, 12.46%, and 13.17%, respectively. This indicates that Nand has the potential to predict AEN and its components during the growth period of winter wheat. The findings will assist in improving in-season N use efficiency by fine-tuning N scheduling decisions in winter wheat cultivation.

Project description:Freezing tolerance of triticale is a major trait contributing to its winter hardiness. The identification of genomic regions - quantitative trait loci (QTL) and molecular markers associated with freezing tolerance in winter hexaploid triticale - was the aim of this study. For that purpose, a new genetic linkage map was developed for the population of 92 doubled haploid lines derived from 'Hewo' × 'Magnat' F1 hybrid. Those lines, together with parents were subjected to freezing tolerance test three times during two winter seasons. Plants were grown and cold-hardened under natural fall/winter conditions and then subjected to freezing in controlled conditions. Freezing tolerance was assessed as the plants recovery (REC), the electrolyte leakage (EL) from leaves and chlorophyll fluorescence parameters (JIP) after freezing. Three consistent QTL for several fluorescence parameters, electrolyte leakage, and the percentage of the survived plants were identified with composite interval mapping (CIM) and single marker analysis (SMA). The first locus Qfr.hm-7A.1 explained 9% of variation of both electrolyte leakage and plants recovery after freezing. Two QTL explaining up to 12% of variation in plants recovery and shared by selected chlorophyll fluorescence parameters were found on 4R and 5R chromosomes. Finally, main locus Qchl.hm-5A.1 was detected for chlorophyll fluorescence parameters that explained up to 19.6% of phenotypic variation. The co-located QTL on chromosomes 7A.1, 4R and 5R, clearly indicated physiological and genetic relationship of the plant survival after freezing with the ability to maintain optimal photochemical activity of the photosystem II and preservation of the cell membranes integrity. The genes located in silico within the identified QTL include those encoding BTR1-like protein, transmembrane helix proteins like potassium channel, and phosphoric ester hydrolase involved in response to osmotic stress as well as proteins involved in the regulation of the gene expression, chloroplast RNA processing, and pyrimidine salvage pathway. Additionally, our results confirm that the JIP test is a valuable tool to evaluate freezing tolerance of triticale under unstable winter environments.

Project description:The development of rice cultivars with nutrient use efficiency (NuUE) is highly crucial for sustaining global rice production in Asia and Africa. However, this requires a better understanding of the genetics of NuUE-related traits and their relationship to grain yield. In this study, simultaneous efforts were made to develop nutrient use efficient rice cultivars and to map quantitative trait loci (QTLs) governing NuUE-related traits in rice. A total of 230 BC₁F₅ introgression lines (ILs) were developed from a single early backcross population involving Weed Tolerant Rice 1, as the recipient parent, and Hao-an-nong, as the donor parent. The ILs were cultivated in field conditions with a different combination of fertilizer schedule under six nutrient conditions: minus nitrogen (⁻N), minus phosphorus (⁻P), (⁻NP), minus nitrogen phosphorus and potassium (⁻NPK), 75% of recommended nitrogen (75N), and NPK. Analysis of variance revealed that significant differences (p < 0.01) were noted among ILs and treatments for all traits. A high-density linkage map was constructed by using 704 high-quality single nucleotide polymorphism (SNP) markers. A total of 49 main-effect QTLs were identified on all chromosomes, except on chromosome 7, 11 and 12, which are showing 20.25% to 34.68% of phenotypic variation. With further analysis of these QTLs, we refined them to four top hotspot QTLs (QTL harbor-I to IV) located on chromosomes 3, 5, 9, and 11. However, we identified four novel putative QTLs for agronomic efficiency (AE) and 22 QTLs for partial factor productivity (PFP) under ⁻P and 75N conditions. These interval regions of QTLs, several transporters and genes are located that were involved in nutrient uptake from soil to plant organs and tolerance to biotic and abiotic stresses. Further, the validation of these potential QTLs, genes may provide remarkable value for marker-aided selection and pyramiding of multiple QTLs, which would provide supporting evidence for the enhancement of grain yield and cloning of NuUE tolerance-responsive genes in rice.

Dataset Information

Identification of quantitative trait loci associated with nitrogen use efficiency in winter wheat.

Publications

Identification of quantitative trait loci associated with nitrogen use efficiency in winter wheat.

Similar Datasets

OmicsDI is part of the ELIXIR infrastructure

Tweets