Molecular and Cytogenetic Characterization of Six Wheat-Aegilops markgrafii Disomic Addition Lines and Their Resistance to Rusts and Powdery Mildew

Niu, Zhixia; Chao, Shiaoman; Cai, Xin; Whetten, Rebecca; Breiland, Matthew; Cowger, Christina; Chen, Xianming; Friebe, Bernd; Gill, Bikram S.; Rasmussen, J. B.; Klindworth, Daryl L.; Xu, Steven S.

doi:10.3389/fpls.2018.01616

Cited by 11 publications

(17 citation statements)

References 45 publications

(70 reference statements)

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“…Chromosome G (4C) had KASP markers assigned from homoeologous groups 4/2/3/7. This partially matched the results by Danilova et al (2017) and Niu et al (2018) who found that chromosome G had markers from homoeologous groups 4/2/3. Our studies found one marker from homoeologous group 7 assigned to chromosome 4C of Ae.…”

Section: Discussionsupporting

confidence: 88%

“…caudata chromosome. An addition line for chromosome A is absent from this set, but reports have suggested it to be homoeologous to group 1 of wheat (Danilova et al, 2017; Friebe et al, 1992; Niu et al, 2018). Thus, the 26 markers that did not detect Ae.…”

Section: Resultsmentioning

confidence: 83%

“…caudata in a wheat background. More recently, Gong et al (2017) developed EST-based markers and Niu et al (2018) developed SSR markers for the detection of Ae. caudata chromatin in a wheat background.…”

Section: Discussionmentioning

confidence: 99%

“…The variation observed in the results indicates the presence of genomic rearrangements. Recently, studies by Danilova et al (2017), Gong et al (2017) and Niu et al (2018) on the Alcedo- Ae. caudata additions lines found that the C-genome chromosomes carried several inversions and translocations but did not agree on the rearrangements carried by each chromosome.…”

Section: Discussionmentioning

confidence: 99%

“…Alcedo)- Ae. caudata addition lines B-G (Schubert and Blüthner, 1992; Schubert and Blüthner, 1995) have also been characterised extensively in previous studies using cytogenetic markers (Friebe et al, 1992), isozyme analysis (Schmidt et al, 1993), Simple Sequence Repeat (SSR) markers (Gong et al, 2017; Niu et al, 2018; Peil et al, 1998), FISH with cDNA probes (Danilova et al, 2017), Conserved Orthologous Sequence (COS) and PCR-based Landmark Unique Gene (PLUG) markers (Gong et al, 2017), and sequential FISH and genomic in situ hybridization (GISH) (Niu et al, 2018). Many of these studies found that the Alcedo- Ae.…”

Section: Introductionmentioning

confidence: 99%

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Development of Wheat-Aegilops caudataIntrogression Lines and Their Characterisation Using Genome-Specific KASP Markers

Grewal

Othmeni

Walker

et al. 2020

Preprint

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22Aegilops caudata L. [syn. Ae. markgrafii (Greuter) Hammer], a diploid wild relative of wheat 23 (2n = 2x = 14, CC), is an important source for new genetic variation for wheat improvement 24 due to a variety of disease resistance factors along with tolerance for various abiotic stresses. 25 Its practical utilisation in wheat improvement can be facilitated through the generation of 26 genome-wide introgressions leading to a variety of different wheat-Ae. caudata recombinant 27 lines. In this study, we report the generation of nine such wheat-Ae. caudata recombinant lines 28 which were characterized using wheat genome-specific KASP (Kompetitive Allele Specific 29 PCR) markers and multi-colour genomic in situ hybridization (mcGISH). Of these, six lines 30 have stable homozygous introgressions from Ae. caudata and will be used for future trait 31 analysis. Through a combination of molecular and cytological analysis of all the recombinant 32 lines, we were able to physically map 182 KASP markers onto the seven Ae. caudata 33 chromosomes, of which 155 were polymorphic specifically with only one wheat subgenome. 34Comparative analysis of the physical positions of these markers in the Ae. caudata and wheat 35 genomes confirmed that the former had chromosomal rearrangements with respect to wheat, 36 as previously reported. These wheat-Ae. caudata recombinant lines and KASP markers 37 provide a useful genetic resource for wheat improvement with the latter having a wider impact 38 as a tool for detection of introgressions from other Aegilops species into wheat. 39 40 Introgression of Aegilops caudata into wheat 71 diversity in wheat breeding. Over the past decades, however, efforts have been made to study 72 the molecular organisation of the Ae. caudata genome and its homology with wheat 73 homoeologous groups. Friebe et al. (1992) showed that Ae. caudata has a highly asymmetric 74 karyotype distinct from the metacentric and submetacentric chromosomes of most Triticeae 75 species suggesting the distortion of chromosome collinearity compared to wheat. Fluorescence 76 in situ hybridisation (FISH) and molecular marker analysis of flow-sorted C-genome 77 chromosomes confirmed genome rearrangements (Molnár et al., 2016; Molnár et al., 2015). A 78 set of wheat (cv. Alcedo)-Ae. caudata addition lines B-G (Schubert and Blüthner, 1992; 79 Schubert and Blüthner, 1995) have also been characterised extensively in previous studies 80 using cytogenetic markers (Friebe et al., 1992), isozyme analysis (Schmidt et al., 1993), Simple 81 Sequence Repeat (SSR) markers (Gong et al., 2017; Niu et al., 2018; Peil et al., 1998), FISH 82 with cDNA probes (Danilova et al., 2017), Conserved Orthologous Sequence (COS) and PCR-83 based Landmark Unique Gene (PLUG) markers (Gong et al., 2017), and sequential FISH and 84 genomic in situ hybridization (GISH) (Niu et al., 2018). Many of these studies found that the 85 Introgression of Aegilops caudata into wheat Alcedo-Ae. caudata addition lines carried several inversions and translocations although ...

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Section: Discussionsupporting

confidence: 88%

Section: Resultsmentioning

confidence: 83%

Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

See 3 more Smart Citations

Development of Wheat-Aegilops caudataIntrogression Lines and Their Characterisation Using Genome-Specific KASP Markers

Grewal

Othmeni

Walker

et al. 2020

Preprint

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Chromosome‐specific KASP markers for detecting Amblyopyrum muticum segments in wheat introgression lines

et al. 2022

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Many wild‐relative species are being used in prebreeding programs to increase the genetic diversity of wheat (Triticum aestivum L.). Genotyping tools such as single nucleotide polymorphism (SNP)‐based arrays and molecular markers have been widely used to characterize wheat–wild relative introgression lines. However, due to the polyploid nature of the recipient wheat genome, it is difficult to develop SNP‐based Kompetitive allele‐specific polymerase chain reaction (KASP) markers that are codominant to track the introgressions from the wild species. Previous attempts to develop KASP markers have involved both exome‐ and polymerase chain reaction (PCR)‐amplicon‐based sequencing of the wild species. But chromosome‐specific KASP assays have been hindered by homoeologous SNPs within the wheat genome. This study involved whole genome sequencing of the diploid wheat wild relative Amblyopyrum muticum (Boiss.) Eig and development of a de novo SNP discovery pipeline that generated ∼38,000 SNPs in unique wheat genome sequences. New assays were designed to increase the density of Am. muticum polymorphic KASP markers. With a goal of one marker per 60 Mbp, 335 new KASP assays were validated as diagnostic for Am. muticum in a wheat background. Together with assays validated in previous studies, 498 well distributed chromosome‐specific markers were used to recharacterize previously genotyped wheat–Am. muticum doubled haploid (DH) introgression lines. The chromosome‐specific nature of the KASP markers allowed clarification of which wheat chromosomes were involved with recombination events or substituted with Am. muticum chromosomes and the higher density of markers allowed detection of new small introgressions in these DH lines.

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Characterization of Pm65, a new powdery mildew resistance gene on chromosome 2AL of a facultative wheat cultivar

Cowger

Wang

et al. 2019

Theor Appl Genet

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Molecular and Cytogenetic Characterization of Six Wheat-Aegilops markgrafii Disomic Addition Lines and Their Resistance to Rusts and Powdery Mildew

Cited by 11 publications

References 45 publications

Development of Wheat-Aegilops caudataIntrogression Lines and Their Characterisation Using Genome-Specific KASP Markers

Development of Wheat-Aegilops caudataIntrogression Lines and Their Characterisation Using Genome-Specific KASP Markers

Chromosome‐specific KASP markers for detecting Amblyopyrum muticum segments in wheat introgression lines

Characterization of Pm65, a new powdery mildew resistance gene on chromosome 2AL of a facultative wheat cultivar

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