Diversity array technology (DArT) 56K analysis, confirmed by SNP markers, distinguishes one сrested wheatgrass Agropyron species from two others found in Kazakhstan

Absattar, Talgat; Absattarova, Aiman; Fillipova, N. E.; Otemissova, Aimur; Shavrukov, Yuri

doi:10.1007/s11032-018-0792-3

Cited by 10 publications

(8 citation statements)

References 40 publications

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“…Meanwhile, the P genome of Agropyron has not been sequenced because of its huge genome and sequencing cost so far (Zhang et al, 2015 ; Absattar et al, 2018 ; Zhou et al, 2018 ). SLAF-seq (specific-locus amplified fragment sequencing) is an effective way for high-throughput simplified genome sequencing and large-scale development of single-nucleotide polymorphism (SNP) markers and genotyping (Sun et al, 2013 ).…”

Section: Introductionmentioning

confidence: 99%

QTL Mapping of Six Spike and Stem Traits in Hybrid Population of Agropyron Gaertn. in Multiple Environments

et al. 2018

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Most Agropyron Gaertn. species are excellent sources of forage. The derivative lines of wheat-Agropyron cristatum show elite agronomic traits, and some are valuable for wheat breeding. The species of Agropyron Gaertn. was mainly recognized by the spike morphology in traditional taxon. Six traits, including spike length (SL), ear stem length (ESL), the second internodes length (SIL), spikelet number per spike (SNS), floret number per spikelet (FNS), and grain number per spikelet (GNS), are vital to morphology studies and also influences the forage crop yield. To elucidate the genetic basis of spike and stem traits, a quantitative trait locus (QTL) analysis was conducted in a cross-pollinated (CP) hybrid population derived from a cross between two diverse parents, Agropyron mongolicum Keng Z2098 and A. cristatum (L.) Gaertn. Z1842, evaluated across three ecotopes (Langfang, Changli, and Guyuan of Hebei, China) over 3 years (from 2014 to 2016). Construction of a high-density linkage map was based on 1,023 single-nucleotide polymorphism (SNP) markers, covering 907.8 cM of the whole Agropyron genome. A total of 306 QTLs with single QTL in different environments explaining 0.07–33.21% of the phenotypic variation were detected for study traits. Seven major-effect QTLs were identified, including one for ESL on chromosome 3, one for SIL on chromosome 5, three for SL (two on chromosome 2 and one on chromosome 4), and two for SNS on chromosomes 3 and 7. Also, seven stable QTLs, including four for ESL, one for SL, one for GNS, and one for FNS, were mainly mapped on chromosomes 2, 3, 4, 5, and 7, respectively, elucidating 0.25–14.98% of the phenotypic variations. On the use of Agropyron CP hybrid population to identify QTL determining spike and stem traits for the first time, these QTLs for six traits would provide a theoretical reference for the molecular marker-assisted selection in the improvement of forage and cereal crop species.

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Section: Introductionmentioning

confidence: 99%

QTL Mapping of Six Spike and Stem Traits in Hybrid Population of Agropyron Gaertn. in Multiple Environments

et al. 2018

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“…Agropyron represented as excellent source of animal fodder and is a suitable habitat for domestic animals and wildlife. Plants of this genus are important in weed control, soil stabilization and watershed management and are a valuable gene pool for breeding bread wheat cultivars (Li et al 2017; Absattar et al 2018). Moreover, valuable characteristics such as tolerance to biotic and abiotic stresses including low temperature, salinity, drought, diseases and pests can be nd among Agropyron plants and therefore, protecting the gene pool of this plant leading to improving pastures and increasing fodder production.…”

Section: Introductionmentioning

confidence: 99%

Genetic variability and population structure of Agropyron desertorum accessions from Iran based on ISSR assay

Maleki

Mohammadi

Arshad

et al. 2023

Preprint

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The genus Agropyron as forage plant has several species which represented resistance against environmental stresses. DNA markers possessed a key role in assessment of plant germplasm and parental selection. In this regard, the genetic diversity of 34 A. desertorum accessions was studied using 28 ISSR primers. A total of 448 loci were amplified in A. desertorum genome that 402 (90%) out of them were polymorphic. The primer (AG)8YC produced the greatest number of polymorphic fragments while the primer (AC)8YA produced the lowest number. The number of effective alleles ranged between 1.26 and 1.57. The highest value of Shanon index was belonged to primer (GA)8T while the highest value of Nei index (0.33) was detected for primers (GA)8T, (TC)8C, and (GACA)4. Primer (GA)8GCC with PIC = 0.40 was the best informative marker in evaluation of A. desertorum genetic diversity. Genetic similarity among studied accessions was between 0.45 (G03 and G17) and 0.80 (G01 and G11). Using Bayesian and WPGMA classification algorithms, the A. desertorum germplasm was divided into two major subgroups (Red and Green) consisted of 13 and 17 accessions and also admixture accessions. Late mature accessions were distinguished from early mature accessions and mostly localized in Green subgroup. The Red subgroup had more private allele as well as heterozygosity compared with Green subgroup and therefore had also promising selection potential. Totally, ISSR markers could distinguished early mature genotypes and this is significant for more forage yield. Likewise, the recognized heterotic groups could help breeders to select highly polymorphic genotypes in polycross breeding.

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“…It is shown to be a good supply of animal feed as well as a suitable habitat for household animals and wildlife. These genus’ plants are useful for weed control, soil stability, and watershed management, as well as providing a rich gene pool for breeding bread wheat varieties [ 2 , 3 ]. Moreover, Agropyron plants have beneficial traits such as resistance to biotic and abiotic challenges such as low temperature, salt, drought, diseases, and pests, which protect the plant’s gene pool and lead to enhanced pastures and greater fodder production [ 4 , 5 ].…”

Section: Introductionmentioning

confidence: 99%

Molecular evidence depicts genetic divergence among Agropyron elongatum and A. cristatum accessions from gene pool of Iran

Hatami Maleki,

Mohammadi,

Firouzkuhi

et al. 2023

PLoS ONE

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The genus Agropyron has an important role in soil protection and forage production in rangelands. The investigation utilized 37 ISSR primers, resulting in the detection of 956 loci within the A. elongatum genome and 705 loci within the A. cristatum genome. The findings revealed a high level of polymorphism, with 97% of loci in A. elongatum and 84% of loci in A. cristatum exhibiting variability. Notably, the primer (AC)8GCT emerged as a promising candidate for evaluating genetic diversity due to its ability to amplify numerous loci in both species. Using both the UPGMA algorithm and Bayesian analysis, the examined Agropyron accessions were categorized into two subgroups based on their respective species. The Q values associated with these subgroups suggested that certain accessions, namely "G16," "G19," "G20," "G21," "G22," "G23," "G24," and "G25," displayed potential admixture genomes. An analysis of molecular variance (AMOVA) underscored the significance of within-species variability, which accounted for 69% of the overall diversity, compared to between-species variability at 31%. Various genetic diversity parameters, including Na, Ne, I, He, and the number of private loci, were found to be higher in A. elongatum when compared to A. cristatum. Furthermore, Jaccard similarity coefficients ranged from 0.33 to 0.66 in A. cristatum and from 0.25 to 0.7 in A. elongatum, indicating the extent of genetic relatedness among these species. Intriguingly, the study identified two and three heterotic groups in A. cristatum and A. elongatum, respectively, which could be harnessed in the development of synthetic varieties to exploit heterosis. The results also indicated that a small proportion of ISSR loci pairs (5.2% in A. elongatum and 0.5% in A. cristatum) exhibited significant levels of linkage disequilibrium (LD) (P≤0.05), suggesting the potential utility of LD-based association mapping in Agropyron species. In conclusion, this research sheds light on the genetic diversity of Agropyron species and provides valuable insights into their potential applications in soil protection and forage production, as well as the prospects for enhancing genetic variability and heterosis in these species.

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Diversity array technology (DArT) 56K analysis, confirmed by SNP markers, distinguishes one сrested wheatgrass Agropyron species from two others found in Kazakhstan

Cited by 10 publications

References 40 publications

QTL Mapping of Six Spike and Stem Traits in Hybrid Population of Agropyron Gaertn. in Multiple Environments

QTL Mapping of Six Spike and Stem Traits in Hybrid Population of Agropyron Gaertn. in Multiple Environments

Genetic variability and population structure of Agropyron desertorum accessions from Iran based on ISSR assay

Molecular evidence depicts genetic divergence among Agropyron elongatum and A. cristatum accessions from gene pool of Iran

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