Chromosome-specific painting in Thinopyrum species using bulked oligonucleotides

Chen, Chen; Han, Yangshuo; He, Xiaohong; Zou, B. S.; Wu, Dandan; Li, Sha; Yang, Cai‐Rong; Liu, Songqin; Cheng, Yiran; Wang, Yi; Kang, Houyang; Fan, Xing; Zhou, Yong‐Hong; Zhang, Tao; Zhang, Haiqin

doi:10.1007/s00122-023-04423-w

Cited by 8 publications

(4 citation statements)

References 61 publications

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“…bessarabicum and Th. elongatum [46] would be useful in future studies on all Thinopyrum species and wheat × Thinopyrum hybrid derivatives.…”

Section: Future Studies On Thinopyrum Intermedium and Related Species...mentioning

confidence: 99%

Genome Analysis of Thinopyrum intermedium and Its Potential Progenitor Species Using Oligo-FISH

Qi,

Liang,

Xing

et al. 2023

Plants

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The genome composition of intermediate wheatgrass (IWG) is complex and continues to be a subject of investigation. In this study, molecular cytogenetics were used to investigate the karyotype composition of Th. intermedium and its relative diploid species. St2-80 developed from Pseudowroegneria strigose and pDb12H developed from Dasypyrum breviaristatum were used as probes in fluorescence in situ hybridization (FISH) to classify the chromosomes of Th. intermedium into three groups, expressed as JvsJvsJrJrStSt. A combined multiplex oligonucleotide probe, including pSc119.2-1, (GAA)10, AFA-3, AFA-4, pAs1-1, Pas1-3, pAs1-4, and pAs1-6, was used to establish the FISH karyotype of ten accessions of Th. intermedium. Variability among and within the studied accessions of intermediate wheatgrass was observed in their FISH patterns. Results of this study led to the conclusions that Jvs had largely been contributed from Da. breviaristatum, but not the present-day Da. villosum; IWG had only one J genome, Jr, which was related to either Th. elongatum or Th. bessarabicum; and St was contributed from the genus Pseudoroegneria by hybridization with Th. junceiforme or Th. sartorii.

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“…bessarabicum and Th. elongatum [46] would be useful in future studies on all Thinopyrum species and wheat × Thinopyrum hybrid derivatives.…”

Section: Future Studies On Thinopyrum Intermedium and Related Species...mentioning

confidence: 99%

Genome Analysis of Thinopyrum intermedium and Its Potential Progenitor Species Using Oligo-FISH

Qi,

Liang,

Xing

et al. 2023

Plants

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“…The FISH chromosome painting analysis was conducted using the bulk oligonucleotide libraries Chr1-Chr7 to determine the homoeologous group relationships of the exogenous chromosomes in K227-48, K242-82, and K246-6, which represent the entire genome sequence of diploid Th. elongatum (Chen et al 2023). The FISH chromosome painting method was previously described by Bi et al (2020) and .…”

Section: In Situ Hybridization Analysesmentioning

confidence: 99%

Introgression of tetraploid Thinopyrum elongatum 6EL segments enhances the stripe rust resistance of adult wheat plants

Zeng,

Li,

et al. 2023

Preprint

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Preventing the widespread occurrence of stripe rust in wheat largely depends on the identification of new stripe rust resistance genes and the breeding of cultivars with durable resistance. We obtained a wheat–tetraploid Thinopyrum elongatum 6E (6D) substitution line and determined that chromosome 6E contains genetic material conferring superior resistance to stripe rust at the adult stage. In this study, three novel wheat–tetraploid Th. elongatum translocation lineswere generated from the offspring of a cross between common wheat and the 6E (6D) substitution line. Genomic in situ hybridization (GISH), fluorescence in situ hybridization chromosome painting (FISH painting), repetitive sequential FISH, and 55K SNP analyses indicated that K227-48, K242-82, and K246-6 contained 42 chromosomes and were 6ES·6DL, 2DL·6EL, and 6DS·6ELtranslocation lines, respectively. The assessment of stripe rust resistance revealed that K227-48 was susceptible to a mixture of Pst races, whereas the 6EL lines K242-82 and K246-6 exhibited adult plant resistance to stripe rust. Thus, this resistance was due to the 6EL chromosome. The overall good agronomic performance of K246-6 implies this line may be a useful germplasm resource for wheat breeding programs. Furthermore, 34 PCR-based markers for chromosome 6EL were developed using the whole-genome sequence of diploid Th. elongatum. This novel translocation line may be applicable for breeding wheat lines resistant to stripe rust. Additionally, themarkers developed in this study will enablethe accurate tracing of tetraploid Th. elongatum chromosome 6E and the mapping of additional favorable genes on 6EL.

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“…The following supporting information can be downloaded at https:// www.mdpi.com/article/10.3390/plants12244169/s1. References [46,47,50,51,[60][61][62][63][64][65][66][67][68][69][70][74][75][76][77][78][79][85][86][87][88][89][90][91] are cited in the supplementary materials. Supplementary Tables: Table S1: Results of the homology search for new St genome terminal satellite repeats with known Triticeae repeats.…”

Section: Supplementary Materialsmentioning

confidence: 99%

“…The following supporting information can be downloaded at . References [ 46 , 47 , 50 , 51 , 60 , 61 , 62 , 63 , 64 , 65 , 66 , 67 , 68 , 69 , 70 , 74 , 75 , 76 , 77 , 78 , 79 , 85 , 86 , 87 , 88 , 89 , 90 , 91 ] are cited in the supplementary materials. Supplementary Tables: Table S1: Results of the homology search for new St genome terminal satellite repeats with known Triticeae repeats.…”

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confidence: 99%

Comparative Characterization of Pseudoroegneria libanotica and Pseudoroegneria tauri Based on Their Repeatome Peculiarities

Kroupin,

Yurkina,

Ulyanov

et al. 2023

Plants

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Pseudoroegneria species play an important role among Triticeae grasses, as they are the putative donors of the St genome in many polyploid species. Satellite repeats are widely used as a reliable tool for tracking evolutionary changes because they are distributed throughout the genomes of plants. The aim of our work is to perform a comparative characterization of the repeatomes of the closely related species Ps. libanotica and Ps. tauri, and Ps. spicata was also included in the analysis. The overall repeatome structures of Ps. libanotica, Ps. tauri, and Ps. spicata were similar, with some individual peculiarities observed in the abundance of the SIRE (Ty1/Copia) retrotransposons, Mutator and Harbinger transposons, and satellites. Nine new satellite repeats that have been identified from the whole-genome sequences of Ps. spicata and Ps. tauri, as well as the CL244 repeat that was previously found in Aegilops crassa, were localized to the chromosomes of Ps. libanotica and Ps. tauri. Four satellite repeats (CL69, CL101, CL119, CL244) demonstrated terminal and/or distal localization, while six repeats (CL82, CL89, CL168, CL185, CL192, CL207) were pericentromeric. Based on the obtained results, it can be assumed that Ps. libanotica and Ps. tauri are closely related species, although they have individual peculiarities in their repeatome structures and patterns of satellite repeat localization on chromosomes. The evolutionary fate of the identified satellite repeats and their related sequences, as well as their distribution on the chromosomes of Triticeae species, are discussed. The newly developed St genome chromosome markers developed in the present research can be useful in population studies of Ps. libanotica and Ps. tauri; auto- and allopolyploids that contain the St genome, such as Thinopyrum, Elymus, Kengyilia, and Roegneria; and wide hybrids between wheat and related wild species.

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Chromosome-specific painting in Thinopyrum species using bulked oligonucleotides

Cited by 8 publications

References 61 publications

Genome Analysis of Thinopyrum intermedium and Its Potential Progenitor Species Using Oligo-FISH

Genome Analysis of Thinopyrum intermedium and Its Potential Progenitor Species Using Oligo-FISH

Introgression of tetraploid Thinopyrum elongatum 6EL segments enhances the stripe rust resistance of adult wheat plants

Comparative Characterization of Pseudoroegneria libanotica and Pseudoroegneria tauri Based on Their Repeatome Peculiarities

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