scholarly journals Developing of scientific resources for marker-assisted selection of a new legume crop – Cyamopsis tetragonoloba (L.) Taub. as a base for guar gum industry in Russia

2019 ◽  
Keyword(s):  
Marker Assisted Selection ◽  
Guar Gum ◽  
Cyamopsis Tetragonoloba ◽  
Legume Crop ◽  
Selection Of

scholarly journals Development of SNP Set for the Marker-Assisted Selection of Guar (Cyamopsis tetragonoloba (L.) Taub.) Based on a Custom Reference Genome Assembly

Plants ◽  
2021 ◽  
Vol 10 (10) ◽  
pp. 2063
Author(s):  
Elizaveta Grigoreva ◽  
Yury Barbitoff ◽  
Anton Changalidi ◽  
Dmitry Karzhaev ◽  
Vladimir Volkov ◽  
...  
Keyword(s):  
Molecular Markers ◽  
Marker Assisted Selection ◽  
Genome Wide Association Study ◽  
Reference Genome ◽  
Guar Gum ◽  
Inositol Phosphates ◽  
Inositol Phosphate ◽  
Industrial Applications ◽  
Gas Production ◽  
Cyamopsis Tetragonoloba

Guar gum, a polysaccharide derived from guar seeds, is widely used in a variety of industrial applications, including oil and gas production. Although guar is mostly propagated in India, interest in guar as a new industrial legume crop is increasing worldwide, demanding the development of effective tools for marker-assisted selection. In this paper, we report a wide-ranging set of 4907 common SNPs and 327 InDels generated from RADseq genotyping data of 166 guar plants of different geographical origin. A custom guar reference genome was assembled and used for variant calling. A consensus set of variants was built using three bioinformatic pipelines for short variant discovery. The developed molecular markers were used for genome-wide association study, resulting in the discovery of six markers linked to the variation of an important agronomic trait—percentage of pods matured to the harvest date under long light day conditions. One of the associated variants was found inside the putative transcript sequence homologous to an ABC transporter in Arabidopsis, which has been shown to play an important role in D-myo-inositol phosphates metabolism. Earlier, we suggested that genes involved in myo-inositol phosphate metabolism have significant impact on the early flowering of guar plants. Hence, we believe that the developed SNP set allows for the identification of confident molecular markers of important agrobiological traits.

An Economic Analysis of Cluster Bean Production in Bikaner District of Rajasthan

2020 ◽  
pp. 1-6
Keyword(s):  
Guar Gum ◽  
Animal Feed ◽  
The State ◽  
Total Output ◽  
Cyamopsis Tetragonoloba ◽  
Small Farm ◽  
Cluster Bean ◽  
Legume Crop ◽  
Large Farm ◽  
Bean Crop

Cluster Bean (Cyamopsis tetragonoloba L. Taub) commonly known as is a drought and high temperature tolerant Cyamopsis tetragonoloba Guar, deep-rooted summer annual legume crop cultivated mainly in the Kharif season in an arid region and used as animal feed, fodder, green manure and extraction of gum for industrial uses. India is the largest producer of cluster bean and contributes 80 percent of total cluster bean production in the world. Rajasthan is the single largest producer and alone contributed to more than 70 percent of India’s total output. The increased demand for guar gum resulted in a strong escalation of the prices of cluster bean. Looking at the agricultural and industrial importance of this marginalized crop in Rajasthan, particularly realizing the potential in Bikaner district of the state, the present study attempted to analyze the present scenario of the production of cluster bean crops in Bikaner district of the state. A return per rupee invested in cluster bean crop was higher in the small farm (1:1.38) and marginally lowers on the medium farm (1:1.35). Break-even guar production ranged between 4.26 to 5.19 q per ha in small farm, 4.16 to 4.99 q per ha in medium and 3.98 to 4.94 q per ha on a large farm.

scholarly journals Identification of Key Metabolic Pathways and Biomarkers Underlying Flowering Time of Guar (Cyamopsis tetragonoloba (L.) Taub.) via Integrated Transcriptome-Metabolome Analysis

Genes ◽  
2021 ◽  
Vol 12 (7) ◽  
pp. 952
Author(s):  
Elizaveta Grigoreva ◽  
Alexander Tkachenko ◽  
Serafima Arkhimandritova ◽  
Aleksandar Beatovic ◽  
Pavel Ulianich ◽  
...  
Keyword(s):  
Flowering Time ◽  
Signaling Pathway ◽  
Guar Gum ◽  
Inositol Phosphate ◽  
Day Length ◽  
Gelling Agent ◽  
Free Form ◽  
Cyamopsis Tetragonoloba ◽  
Genetic Determination ◽  
Legume Crop

Guar (Cyamopsis tetragonoloba (L.) Taub.) is an annual legume crop native to India and Pakistan. Seeds of the plant serve as a source of galactomannan polysaccharide (guar gum) used in the food industry as a stabilizer (E412) and as a gelling agent in oil and gas fracturing fluids. There were several attempts to introduce this crop to countries of more northern latitudes. However, guar is a plant of a short photoperiod, therefore, its introduction, for example, to Russia is complicated by a long day length during the growing season. Breeding of new guar varieties insensitive to photoperiod slowed down due to the lack of information on functional molecular markers, which, in turn, requires information on guar genome. Modern breeding strategies, e.g., genomic predictions, benefit from integration of multi-omics approaches such as transcriptome, proteome and metabolome assays. Here we present an attempt to use transcriptome-metabolome integration to understand the genetic determination of flowering time variation among guar plants that differ in their photoperiod sensitivity. This study was performed on nine early- and six delayed-flowering guar varieties with the goal to find a connection between 63 metabolites and 1,067 differentially expressed transcripts using Shiny GAM approach. For the key biomarker of flowering in guar myo-inositol we also evaluated the KEGG biochemical pathway maps available for Arabidopsis thaliana. We found that the phosphatidylinositol signaling pathway is initiated in guar plants that are ready for flowering through the activation of the phospholipase C (PLC) gene, resulting in an exponential increase in the amount of myo-inositol in its free form observed on GC-MS chromatograms. The signaling pathway is performed by suppression of myo-inositol phosphate kinases (phosphorylation) and alternative overexpression of phosphatases (dephosphorylation). Our study suggests that metabolome and transcriptome information taken together, provide valuable information about biomarkers that can be used as a tool for marker-assisted breeding, metabolomics and functional genomics of this important legume crop.

scholarly journals Key metabolites associated with the onset of flowering of guar genotypes (Cyamopsis tetragonoloba (L.) Taub)

2020 ◽  
Vol 20 (S1) ◽  
Author(s):  
Serafima Arkhimandritova ◽  
Alexey Shavarda ◽  
Elena Potokina
Keyword(s):  
Guar Gum ◽  
Early Flowering ◽  
Genomic Research ◽  
Rapid Screening ◽  
Cyamopsis Tetragonoloba ◽  
Experimental Conditions ◽  
Legume Crop ◽  
Gene Associations ◽  
Delayed Flowering ◽  
Leaf Appearance

Abstract Background Guar (Cyamopsis tetragonoloba (L.) Taub.), a short-day plant, is an economically valuable legume crop. Seeds of guar serve as a source of galactomannan polysaccharide, known as guar gum, which is in demand in the gas and oil industries. The rapid and complete maturation of guar seeds depends on the flowering time of a particular genotype. It is known that flowering in guar is controlled by several gene systems. However, no information about the process and mechanisms that trigger flowering in guar on the molecular and biochemical levels was previously reported. The aim of the study was to investigate the metabolic landscape underlying transition to the flowering in guar using GC-MS-metabolomic analysis. Results 82 diverse guar genotypes (each in 8 replicates) from the VIR collection were grown under experimental conditions of high humidity and long photoperiod. In the stress environment some guar genotypes turned to flowering early (41 ± 1,8 days from the first true leaf appearance) while for others the serious delay of flowering (up to 95 ± 1,7 days) was observed. A total of 244 metabolites were detected by GC-MS analysis on the third true leaves stage of 82 guar genotypes. Among them some molecules were associated with the transition of the guar plants to flowering. Clear discrimination was observed in metabolomic profiles of two groups of «early flowering» and «delayed flowering» plants, with 65 metabolites having a significantly higher abundance in early flowering genotypes. Among them 7 key molecules were identified by S-plot, as potential biomarkers discriminating of «early flowering» and «delayed flowering» guar genotypes. Conclusions The metabolomic landscape accompanying transition to flowering in guar was firstly described. The results obtained can be used in subsequent genomic research for identifying metabolite-gene associations and revealing genes responsible for the onset of flowering and photoperiod sensitivity of guar. In addition, the detected key metabolites associated with flowering of guar can be employed as biomarkers allowing rapid screening of breeding material for the potentially early flowering genotypes.

scholarly journals Mapping QTL for spike fertility and related traits in two doubled haploid wheat (Triticum aestivum L.) populations

2021 ◽  
Vol 21 (1) ◽  
Author(s):  
Nicole Pretini ◽  
Leonardo S. Vanzetti ◽  
Ignacio I. Terrile ◽  
Guillermo Donaire ◽  
Fernanda G. González
Keyword(s):  
Doubled Haploid ◽  
Marker Assisted Selection ◽  
Triticum Aestivum L ◽  
Physiological Model ◽  
Yield Potential ◽  
Breeding Programs ◽  
Per Se ◽  
Genomic Regions ◽  
Fertility Traits ◽  
Selection Of

Abstract Background In breeding programs, the selection of cultivars with the highest yield potential consisted in the selection of the yield per se, which resulted in cultivars with higher grains per spike (GN) and occasionally increased grain weight (GW) (main numerical components of the yield). In this study, quantitative trait loci (QTL) for GW, GN and spike fertility traits related to GN determination were mapped using two doubled haploid (DH) populations (Baguette Premium 11 × BioINTA 2002 and Baguette 19 × BioINTA 2002). Results In total 305 QTL were identified for 14 traits, out of which 12 QTL were identified in more than three environments and explained more than 10% of the phenotypic variation in at least one environment. Eight hotspot regions were detected on chromosomes 1A, 2B, 3A, 5A, 5B, 7A and 7B in which at least two major and stable QTL sheared confidence intervals. QTL on two of these regions (R5A.1 and R5A.2) have previously been described, but the other six regions are novel. Conclusions Based on the pleiotropic analysis within a robust physiological model we conclude that two hotspot genomic regions (R5A.1 and R5A.2) together with the QGW.perg-6B are of high relevance to be used in marker assisted selection in order to improve the spike yield potential. All the QTL identified for the spike related traits are the first step to search for their candidate genes, which will allow their better manipulation in the future.

scholarly journals Molecular marker-assisted selection of the ae alleles in maize

2010 ◽  
Vol 9 (2) ◽  
pp. 1074-1084
Author(s):  
F. Chen ◽  
S.W. Zhu ◽  
Y. Xiang ◽  
H.Y. Jiang ◽  
B.J. Cheng
Keyword(s):  
Molecular Marker ◽  
Marker Assisted Selection ◽  
Selection Of

scholarly journals Development of KASP Markers for Germplasm Characterization and Fingerprinting Identification of Broccoli in China

2020 ◽  
Author(s):  
Yusen Shen ◽  
Jiansheng Wang ◽  
Huifang Yu ◽  
Xiaoguang Sheng ◽  
Zhenqing Zhao ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Marker Assisted Selection ◽  
Genetic Relationships ◽  
Cost Effective ◽  
Germplasm Characterization ◽  
2D Barcode ◽  
New Type ◽  
Generation Sequencing ◽  
Kasp Markers ◽  
Selection Of

Abstract Background: Broccoli (Brassica oleracea var. italica) is a vegetable widely cultivated in China. Many new-type broccoli cultivars were bred and developed by Chinese breeders during the recent three decades. However, the broccoli cultivar nomenclature and detailed information of genetic relationships among broccoli germplasms are unclear. Results: The present study identified millions of SNPs by next-generation sequencing of 23 representative broccoli lines. Through several steps of selection, 100 SNPs were successfully converted into KASP markers, and used to evaluate the genetic diversity, genetic relationship, and population structure of 392 broccoli accessions, which represent the mainly broccoli breeding materials in China. The initial, introduced and improved accessions were well clustered, though some accessions were overlapped between groups, probably reflecting the fact that breeding activities led to genetic similarities. To make the KASP genotyping more efficient and cost-effective, 25 of the 100 KASPs were selected for fingerprinting of all accessions, and the 2D barcode contained fingerprinting information were generated for elite varieties. Conclusion: The KASP markers developed in this study provided an efficient way for germplasm characterization, DNA fingerprinting, seed purity identification, and marker-assisted selection of broccoli in China.

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