Genetic diversity and relationships among accessions of five crested wheatgrass species (Poaceae: Agropyron) based on gliadin analysis

Chen, S.Y.; Ma, Xiao; Zhang, X.Q.; Huang, Luqi; Zhou, J.N.

doi:10.4238/2013.november.18.19

Cited by 10 publications

(5 citation statements)

References 25 publications

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“…Specific FISH patterns of trinucleotide SSRs were detected in three different Agropyron species. Extensive intra- or inter-population genetic variation has been detected in Agropyron species ( Mellish et al 2002 , Che et al 2011 , Chen et al 2013 ). However, limited materials of each species were analyzed in the present study.…”

Section: Discussionmentioning

confidence: 99%

Diversification of the P genome among Agropyron Gaertn. (Poaceae) species detected by FISH

Zhao¹,

Xie²,

Dou³

et al. 2017

CCG

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The genomes of five Agropyron Gaertner, 1770 species were characterized using all potential di- or trinucleotide simple sequence repeat (SSR) motifs and four satellite DNA repeats as fluorescence in situ hybridization (FISH) probes. The sites of 5S and 45S rDNA were relatively conserved among the diploid and tetraploid species. A number of sites for the dinucleotide SSRs AC, AG, and pSc119.2 was detected in all investigated species except A. mongolicum Keng, 1938. Several different trinucleotide SSRs were identified in different tetraploid species. All Agropyron species were suggested to include the basic P genome, although genome differentiation was still observed. The P genome of A. mongolicum was distinct from that of the diploid A. cristatum (Linnaeus, 1753) Gaertner, 1770. and other tetraploid species, with no hybridizations for AC, AG, or pSc119.2 observed. This finding supports designation of the P genomes of A. cristatum and A. mongolicum as Pc and Pm, respectively. An exceptional 5S rDNA site revealed in one set of homoeologous chromosomes strongly supports the allopolyploid origin of A. desertorum (Fischer ex Link, 1821) Schultes, 1824. However, the diploid donors to A. desertorum need further investigation. Similarly, the unique FISH pattern of a pair of 5S rDNA-carrying chromosomes was indicative of a potential allopolyploid origin for A. fragile (Roth, 1800) Candargy, 1984. The conserved distribution of 5S and 45S rDNA suggests A. cristatum (4x) and A. michnoi Roshevitz, 1929 are closely related. Two forms of B chromosomes were identified among individuals A. mongolicum and A. desertorum plants.

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Section: Discussionmentioning

confidence: 99%

Diversification of the P genome among Agropyron Gaertn. (Poaceae) species detected by FISH

Zhao¹,

Xie²,

Dou³

et al. 2017

CCG

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“…(2 n = 4x = 28; genomes PPPP) is the most common member of the Agropyron genus. A. cristatum is native to Europe and Asia, especially in low-temperature grasslands and sands regions in Eurasian, and has short broad spikes that taper at the top, small seeds, and short stature (Chen et al, 2013 ) (Figure 1 ). A. cristatum not only provides protein as a forage source but also possesses several desirable traits for wheat improvement, such as more tillers, spikelets, and florets, resistance against powdery mildew, barley yellow dwarf virus, leaf rust, stripe rust, and stem rust and tolerance against salinity, drought, and low temperatures.…”

Section: Introductionmentioning

confidence: 99%

RNA-Seq Analysis Provides the First Insights into the Phylogenetic Relationship and Interspecific Variation between Agropyron cristatum and Wheat

Zhou

Yan

et al. 2017

Front. Plant Sci.

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Agropyron cristatum, which is a wild grass of the tribe Triticeae, grows widely in harsh environments and provides many desirable genetic resources for wheat improvement. However, unclear interspecific phylogeny and genome-wide variation has limited the utilization of A. cristatum in the production of superior wheat varieties. In this study, by sequencing the transcriptome of the representative tetraploid A. cristatum Z559 and the common wheat variety Fukuhokomugi (Fukuho), which are often used as parents in a wide cross, their phylogenetic relationship and interspecific variation were dissected. First, 214,854 transcript sequences were assembled, and 3,457 orthologous genes related to traits of interest were identified in A. cristatum. Second, a total of 72 putative orthologous gene clusters were used to construct phylogenetic relationships among A. cristatum, Triticeae and other genomes. A clear division between A. cristatum and the other Triticeae species was revealed. Third, the sequence similarity of most genes related to traits of interest is greater than 95% between A. cristatum and wheat. Therefore, using the 5% mismatch parameter for A. cristatum, we mapped the transcriptome sequencing data to wheat reference sequences to discover the variations between A. cristatum and wheat and 862,340 high-quality variants were identified. Additionally, compared with the wheat A and B genomes, the P and D genomes displayed an obviously larger variant density and a longer evolutionary distance, suggesting that A. cristatum is more distantly related to the wheat D genome. Finally, by using Kompetitive Allele Specific PCR array (KASPar) technology, 37 of 53 (69.8%) SNPs were shown to be genuine in Z559, Fukuho, and additional lines with seven different P chromosomes, and function of the genes in which these SNPs are located were also determined. This study provides not only the first insights into the phylogenetic relationships between the P genome and Triticeae but also genetic resources for gene discovery and specific marker development in A. cristatum, and this information will be vital for future wheat-breeding efforts. The sequence data have been deposited in the Sequence Read Archive (SRA) database at the NCBI under accession number SRP090613.

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“…imbricatum, A. cristatum ssp. pectinatum, and A. fragile are five most common members of the Agropyron genus (Chen et al 2013). The Agropyron genus exists naturally at three ploidy levels: diploid, 2n = 2 9 = 14, PP; tetraploid, 2n = 4 9 = 28, PPPP; and hexaploid, 2n = 6 9 = 42, PPPPPP.…”

Section: Introductionmentioning

confidence: 99%

A high-density genetic map for P genome of Agropyron Gaertn. based on specific-locus amplified fragment sequencing (SLAF-seq)

Yan

Zhang

Huang

et al. 2015

Planta

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This genetic map for Agropyron Gaertn. contained 1023 markers on seven linkage groups, with a total of 907.8 cM and an average distance of 1.5 cM between adjacent loci. Many wheat- Agropyron cristatum derivative lines exhibit superior agronomic traits, and part of them are valuable for future wheat breeding. To date, no high-density genetic map for Agropyron Gaertn. has been published. Specific-locus amplified fragment sequencing (SLAF-seq), a recently developed strategy for large scale de novo discovery and genotyping of single nucleotide polymorphisms (SNPs), was employed in this study to develop sufficient markers for a segregating Agropyron F1 population derived from an interspecific cross between two cross-pollinated diploid collections A. cristatum (L.) Beauv. 'Z1842' and A. mongolicum Keng 'Z2098'. In total, we obtained raw data consisting of 128,932,358 pair-end reads of ~80 bp long after sequencing. Then 69,325 high-quality SLAFs were detected, of which 26,248 SLAFs were polymorphic and 1752 of the polymorphic markers were used for the genetic map construction. The final map contained 1023 markers on the seven linkage groups (LGs), which spanned a total of 907.8 cM with an average number of 146 markers and 89 loci per LG and an average distance of 1.5 cM between adjacent loci. To our knowledge, this map is the densest genetic linkage map for Agropyron so far. Through BLAT alignment of Agropyron SLAF marker sequences with the draft genome assemblies of wheat and barley, the Agropyron LGs were assigned as LG1-7 according to their corresponding homoeologous chromosomal groups of wheat. Results of this study will not only provide a platform for gene/QTL fine mapping, but also serve as a reference to assist the assembling of the P genome sequence in future.

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Genetic diversity and relationships among accessions of five crested wheatgrass species (Poaceae: Agropyron) based on gliadin analysis

Cited by 10 publications

References 25 publications

Diversification of the P genome among Agropyron Gaertn. (Poaceae) species detected by FISH

Diversification of the P genome among Agropyron Gaertn. (Poaceae) species detected by FISH

RNA-Seq Analysis Provides the First Insights into the Phylogenetic Relationship and Interspecific Variation between Agropyron cristatum and Wheat

A high-density genetic map for P genome of Agropyron Gaertn. based on specific-locus amplified fragment sequencing (SLAF-seq)

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