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The perennial species Dasypyrum breviaristatum (genome Vb) contains many potentially valuable genes for the improvement of common wheat. Construction of a detailed karyotype of D. breviaristatum chromosomes will be useful for the detection of Dasypyrum chromatin in wheat background. We established the standard karyotype of 1Vb–7Vb chromosomes through nondenaturing fluorescence in situ hybridization (ND-FISH) technique using 28 oligonucleotide probes from the wheat – D. breviaristatum partial amphiploid TDH-2 (AABBVbVb) and newly identified wheat – D. breviaristatum disomic translocation and addition lines D2138 (6VbS.2VbL), D2547 (4Vb), and D2532 (3VbS.6VbL) by comparative molecular marker analysis. The ND-FISH with multiple oligo probes was conducted on the durum wheat – D. villosum amphiploid TDV-1 and large karyotype differences between D. breviaristatum and D. villosum was revealed. These ND-FISH probes will be valuable for screening the wheat – Dasypyrum derivative lines for chromosome identification, and the newly developed wheat – D. breviaristatum addition lines may broaden the gene pool of wheat breeding. The differences between D. villosum and D. breviaristatum chromosomes revealed by ND-FISH will help us understand evolutionary divergence of repetitive sequences within the genus Dasypyrum.
Zhihui Yu; Hongjin Wang; Wenxi Jiang; Chengzhi Jiang; Weiguang Yuan; Guangrong Li; Zujun Yang. Karyotyping Dasypyrum breviaristatum chromosomes with multiple oligonucleotide probes reveals the genomic divergence in Dasypyrum. Genome 2021, 64, 789 -800.
AMA StyleZhihui Yu, Hongjin Wang, Wenxi Jiang, Chengzhi Jiang, Weiguang Yuan, Guangrong Li, Zujun Yang. Karyotyping Dasypyrum breviaristatum chromosomes with multiple oligonucleotide probes reveals the genomic divergence in Dasypyrum. Genome. 2021; 64 (8):789-800.
Chicago/Turabian StyleZhihui Yu; Hongjin Wang; Wenxi Jiang; Chengzhi Jiang; Weiguang Yuan; Guangrong Li; Zujun Yang. 2021. "Karyotyping Dasypyrum breviaristatum chromosomes with multiple oligonucleotide probes reveals the genomic divergence in Dasypyrum." Genome 64, no. 8: 789-800.
Thinopyrum intermedium (2n = 6x = 42, JJJSJSStSt) is one of the important resources for the wheat improvement. So far, a few Th. intermedium (Thi)-specific molecular markers have been reported, but the number is far from enough to meet the need of identifying alien fragments in wheat-Th. intermedium hybrids. In this study, 5,877,409 contigs were assembled using the Th. intermedium genotyping-by-sequencing (GBS) data. We obtained 5,452 non-redundant contigs containing mapped Thi-GBS markers with less than 20% similarity to the wheat genome and developed 2,019 sequence-tagged site (STS) molecular markers. Among the markers designed, 745 Thi-specific markers with amplification products in Th. intermedium but not in eight wheat landraces were further selected. The distribution of these markers in different homologous groups of Th. intermedium varied from 47 (7/12/28 on 6J/6St/6JS) to 183 (54/62/67 on 7J/7St/7JS). Furthermore, the effectiveness of these Thi-specific markers was verified using wheat-Th. intermedium partial amphidiploids, addition lines, substitution lines, and translocation lines. Markers developed in this study provide a convenient, rapid, reliable, and economical method for identifying Th. intermedium chromosomes in wheat. In addition, this set of Thi-specific markers can also be used to estimate genetic and physical locations of Th. intermedium chromatin in the introgression lines, thus providing valuable information for follow-up studies such as alien gene mining.
Linyi Qiao; Shujuan Liu; Jianbo Li; Shijiao Li; Zhihui Yu; Cheng Liu; Xin Li; Jing Liu; Yongkang Ren; Peng Zhang; Xiaojun Zhang; Zujun Yang; Zhijian Chang. Development of Sequence-Tagged Site Marker Set for Identification of J, JS, and St Sub-genomes of Thinopyrum intermedium in Wheat Background. Frontiers in Plant Science 2021, 12, 1 .
AMA StyleLinyi Qiao, Shujuan Liu, Jianbo Li, Shijiao Li, Zhihui Yu, Cheng Liu, Xin Li, Jing Liu, Yongkang Ren, Peng Zhang, Xiaojun Zhang, Zujun Yang, Zhijian Chang. Development of Sequence-Tagged Site Marker Set for Identification of J, JS, and St Sub-genomes of Thinopyrum intermedium in Wheat Background. Frontiers in Plant Science. 2021; 12 ():1.
Chicago/Turabian StyleLinyi Qiao; Shujuan Liu; Jianbo Li; Shijiao Li; Zhihui Yu; Cheng Liu; Xin Li; Jing Liu; Yongkang Ren; Peng Zhang; Xiaojun Zhang; Zujun Yang; Zhijian Chang. 2021. "Development of Sequence-Tagged Site Marker Set for Identification of J, JS, and St Sub-genomes of Thinopyrum intermedium in Wheat Background." Frontiers in Plant Science 12, no. : 1.
Background The identification of chromosomes among Avena species have been studied by C-banding and in situ hybridization. However, the complicated results from several cytogenetic nomenclatures for identifying oat chromosomes are often contradictory. A universal karyotyping nomenclature system for precise chromosome identification and comparative evolutionary studies would be essential for genus Avena based on the recently released genome sequences of hexaploid and diploid Avena species. Results Tandem repetitive sequences were predicted and physically located on chromosomal regions of the released Avena sativa OT3098 genome assembly v1. Eight new oligonucleotide (oligo) probes for sequential fluorescence in situ hybridization (FISH) were designed and then applied for chromosome karyotyping on mitotic metaphase spreads of A. brevis, A. nuda, A. wiestii, A. ventricosa, A. fatua, and A. sativa species. We established a high-resolution standard karyotype of A. sativa based on the distinct FISH signals of multiple oligo probes. FISH painting with bulked oligos, based on wheat-barley collinear regions, was used to validate the linkage group assignment for individual A. sativa chromosomes. We integrated our new Oligo-FISH based karyotype system with earlier karyotype nomenclatures through sequential C-banding and FISH methods, then subsequently determined the precise breakage points of some chromosome translocations in A. sativa. Conclusions This new universal chromosome identification system will be a powerful tool for describing the genetic diversity, chromosomal rearrangements and evolutionary relationships among Avena species by comparative cytogenetic and genomic approaches.
Wenxi Jiang; Chengzhi Jiang; Weiguang Yuan; Meijun Zhang; Zijie Fang; Yang Li; Guangrong Li; Juqing Jia; Zujun Yang. A universal karyotypic system for hexaploid and diploid Avena species brings oat cytogenetics into the genomics era. BMC Plant Biology 2021, 21, 1 -15.
AMA StyleWenxi Jiang, Chengzhi Jiang, Weiguang Yuan, Meijun Zhang, Zijie Fang, Yang Li, Guangrong Li, Juqing Jia, Zujun Yang. A universal karyotypic system for hexaploid and diploid Avena species brings oat cytogenetics into the genomics era. BMC Plant Biology. 2021; 21 (1):1-15.
Chicago/Turabian StyleWenxi Jiang; Chengzhi Jiang; Weiguang Yuan; Meijun Zhang; Zijie Fang; Yang Li; Guangrong Li; Juqing Jia; Zujun Yang. 2021. "A universal karyotypic system for hexaploid and diploid Avena species brings oat cytogenetics into the genomics era." BMC Plant Biology 21, no. 1: 1-15.
Wheat sharp eyespot, a disease mainly caused by soilborne fungus Rhizoctonia cerealis, is a threat to world wheat production. Wheat’s genetic resistance to sharp eyespot is a potential approach to reducing the application of fungicides and farming practice inputs. To identify the genetic basis of sharp eyespot resistance in Niavt14, a recombinant inbred line population comprising 215 F8 lines from Niavt14 × Xuzhou25, was developed. An earlier linkage map (148 simple sequence repeat markers) was updated with 5,792 polymorphic Affymetrix Axiom 55K single-nucleotide polymorphisms to a new map of 5,684.2 centimorgans with 1,406 nonredundant markers. The new linkage map covered all 21 chromosomes of common wheat and showed a good collinearity with the IWGSC RefSeq v1.0 genome. We conducted quantitative trait locus (QTL) mapping for sharp eyespot resistance using the adult plant response data from the field of five consecutive growing seasons and one greenhouse test. Two stable QTL on chromosomes 2B and 7D that were identified in the previous study were confirmed, and three novel, stable QTL, explaining 4.0 to 17.5% phenotypic variation, were mapped on 1D, 6D, and 7A, which were independent of QTL for phenology and plant height. The QTL on 1D, 2B, 6D, and 7A showed low frequencies in 384 landraces (0 to 10%) and 269 elite cultivars (5 to 23%) from the southern winter wheat region and the Yellow and Huai River Valley facultative wheat region in China, respectively. These identified QTL could be used in wheat breeding programs for improving sharp eyespot resistance through marker-assisted selection.
Caiyun Liu; Wei Guo; Qiaofeng Zhang; Bisheng Fu; Zujun Yang; Sivakumar Sukumaran; Jin Cai; Ying Liu; Wenling Zhai; XiaoYou Wu; Jizhong Wu. Genetic Dissection of Adult Plant Resistance to Sharp Eyespot Using an Updated Genetic Map of Niavt14 × Xuzhou25 Winter Wheat Recombinant Inbred Line Population. Plant Disease 2021, 105, 997 -1005.
AMA StyleCaiyun Liu, Wei Guo, Qiaofeng Zhang, Bisheng Fu, Zujun Yang, Sivakumar Sukumaran, Jin Cai, Ying Liu, Wenling Zhai, XiaoYou Wu, Jizhong Wu. Genetic Dissection of Adult Plant Resistance to Sharp Eyespot Using an Updated Genetic Map of Niavt14 × Xuzhou25 Winter Wheat Recombinant Inbred Line Population. Plant Disease. 2021; 105 (4):997-1005.
Chicago/Turabian StyleCaiyun Liu; Wei Guo; Qiaofeng Zhang; Bisheng Fu; Zujun Yang; Sivakumar Sukumaran; Jin Cai; Ying Liu; Wenling Zhai; XiaoYou Wu; Jizhong Wu. 2021. "Genetic Dissection of Adult Plant Resistance to Sharp Eyespot Using an Updated Genetic Map of Niavt14 × Xuzhou25 Winter Wheat Recombinant Inbred Line Population." Plant Disease 105, no. 4: 997-1005.
Background The identification of chromosomes among Avena species have been studied by C-banding and in situ hybridization. However, the complicated results from several cytogenetic nomenclatures for identifying oat chromosomes are often contradictory. A universal karyotyping nomenclature system for precise chromosome identification and comparative evolutionary studies would be essential for genus Avena based on the recently released genome sequences of hexaploid and diploid Avena species. Results Tandem repetitive sequences were predicted and physically located on chromosomal regions of the Avena sativa genomes. Thirteen new oligonucleotide (oligo) probes for sequential fluorescence in situ hybridization (FISH) were designed and then applied for chromosome karyotyping on mitotic metaphase spreads of eleven hexaploid and diploid Avena accessions. We established a high resolution standard karyotype of A. sativa based on the distinct FISH signals of multiple oligo probes. FISH painting with bulked oligos, based on wheat-barley collinear regions, was used to validate the linkage group assignment for individual A. sativa chromosomes. We integrated our new Oligo-FISH based karyotype system with earlier karyotype nomenclatures through sequential C-banding and FISH methods, then subsequently determined the precise breakage points of some chromosome translocations. Conclusion This new universal chromosome identification system will be a powerful tool for describing the genetic diversity, chromosomal rearrangements and evolutionary relationships among Avena species by comparative cytogenetic and genomic approaches.
Wenxi Jiang; Chengzhi Jiang; Weiguang Yuan; Meijun Zhang; Zijie Fang; Yang Li; Guangrong Li; Juqing Jia; Zujun Yang. A universal karyotypic system for hexaploid and diploid Avena species brings oat cytogenetics into the genomics era. 2021, 1 .
AMA StyleWenxi Jiang, Chengzhi Jiang, Weiguang Yuan, Meijun Zhang, Zijie Fang, Yang Li, Guangrong Li, Juqing Jia, Zujun Yang. A universal karyotypic system for hexaploid and diploid Avena species brings oat cytogenetics into the genomics era. . 2021; ():1.
Chicago/Turabian StyleWenxi Jiang; Chengzhi Jiang; Weiguang Yuan; Meijun Zhang; Zijie Fang; Yang Li; Guangrong Li; Juqing Jia; Zujun Yang. 2021. "A universal karyotypic system for hexaploid and diploid Avena species brings oat cytogenetics into the genomics era." , no. : 1.
A physical map of Thinopyrum intermedium chromosome 7J was constructed using translocation mapping, and a new seedling purple coleoptile gene was mapped to the bin of FL 0.35–0.63 of 7JS. Thinopyrum intermedium (2n = 6x = 42, JJJsJsStSt), a wild relative of common wheat, harbors numerous beneficial genes for wheat improvement. Previous studies showed that wheat–Th. intermedium partial amphiploid TAF46 and its derived addition line L1 had a purple coleoptile, which was derived from Th. intermedium chromosome 7J. To identify and physically map the purple coleoptile gene, 12 wheat–Th. intermedium 7J translocation lines were analyzed by sequential multicolor fluorescence in situ hybridization (mc-FISH), PCR-based landmark unique gene (PLUG) and intron targeting (IT) markers. A physical map of the 7J chromosome was constructed, consisting of eight chromosomal bins with 89 markers. Seedling evaluation of the coleoptile colors of all tested materials indicated that the purple coleoptile gene was located to the bin with a fraction length (FL) of 0.35–0.63 on chromosome 7JS. Furthermore, based on the syntenic relationships between Th. intermedium and wheat chromosomes, we developed a new chromosome 7J-specific EST-PCR marker from the chromosomal region corresponding to the purple coleoptile gene through the Triticeae multi-omics database. The approach of designing chromosome-specific markers has facilitated fine mapping of the Thinopyrum-specific purple coleoptile gene, and these translocation lines will be valuable for studying the function of the purple coleoptile gene in anthocyanin biosynthesis.
Jianbo Li; Zhihui Yu; Ahui Zhang; Yan Yin; Lingrong Tang; Guangrong Li; Peng Zhang; Imtiaz Ahmed Khan; Ian Dundas; Zujun Yang. Physical mapping of chromosome 7J and a purple coleoptile gene from Thinopyrum intermedium in the common wheat background. Planta 2021, 253, 1 -12.
AMA StyleJianbo Li, Zhihui Yu, Ahui Zhang, Yan Yin, Lingrong Tang, Guangrong Li, Peng Zhang, Imtiaz Ahmed Khan, Ian Dundas, Zujun Yang. Physical mapping of chromosome 7J and a purple coleoptile gene from Thinopyrum intermedium in the common wheat background. Planta. 2021; 253 (1):1-12.
Chicago/Turabian StyleJianbo Li; Zhihui Yu; Ahui Zhang; Yan Yin; Lingrong Tang; Guangrong Li; Peng Zhang; Imtiaz Ahmed Khan; Ian Dundas; Zujun Yang. 2021. "Physical mapping of chromosome 7J and a purple coleoptile gene from Thinopyrum intermedium in the common wheat background." Planta 253, no. 1: 1-12.
A chromosome‐specific painting technique has been developed which combines the most recent approaches of the companion disciplines of molecular cytogenetics and genome research. We developed seven oligonucleotide (oligo) pools derived from single copy sequences on chromosomes 1 to 7 of barley (Hordeum vulgare L.) and corresponding collinear regions of wheat (Triticum aestivum L.). The seven groups of pooled oligos comprised between 10,986 and 12,496 45bp monomers, and these then produced stable fluorescence in situ hybridization (FISH) signals on chromosomes of each linkage group of wheat and barley. The pooled oligo probes were applied to high‐throughput karyotyping the chromosomes of other Triticeae species in the genera Secale, Aegilops, Thinopyrum and Dasypyrum, and the study also extended to some wheat ‐ alien amphiploids and derived lines. We demonstrated that a complete set of whole‐chromosome oligo painting probes facilitated the study of inter‐species chromosome homoeologous relationships and visualized non‐homologous chromosomal rearrangements in Triticeae species and some wheat‐alien species derivatives. When combined with other non‐denaturing FISH (ND‐FISH) procedures using tandem‐repeat oligos,, the newly developed oligo‐painting techniques provide an efficient tool for the study of chromosome structure, organization, and evolution among any wild Triticeae species with non‐sequenced genomes.
Guangrong Li; Tao Zhang; Zhihui Yu; Hongjin Wang; Ennian Yang; Zujun Yang. An efficient Oligo‐FISH painting system for revealing chromosome rearrangements and polyploidization in Triticeae. The Plant Journal 2020, 105, 978 -993.
AMA StyleGuangrong Li, Tao Zhang, Zhihui Yu, Hongjin Wang, Ennian Yang, Zujun Yang. An efficient Oligo‐FISH painting system for revealing chromosome rearrangements and polyploidization in Triticeae. The Plant Journal. 2020; 105 (4):978-993.
Chicago/Turabian StyleGuangrong Li; Tao Zhang; Zhihui Yu; Hongjin Wang; Ennian Yang; Zujun Yang. 2020. "An efficient Oligo‐FISH painting system for revealing chromosome rearrangements and polyploidization in Triticeae." The Plant Journal 105, no. 4: 978-993.
Wheat-rye 1RS.1BL translocation has a significant impact on wheat yield and hence food production globally. However, the genomic basis of its contributions to wheat improvement is undetermined. Here, we generated a high-quality assembly of 1RS.1BL translocation comprising 748,715,293 bp with 4,996 predicted protein-coding genes. We found the size of 1RS is larger than 1BS with the active centromere domains shifted to the 1RS side instead of the 1BL side in Aikang58 (AK58). The gene alignment showed excellent synteny with 1BS from wheat and genes from 1RS were expressed well in wheat especially for 1RS where expression was higher than that of 1BS for the grain-20DPA stage associated with greater grain weight and negative flour quality attributes. A formin-like-domain protein FH14 (TraesAK58CH1B01G010700) was important in regulating cell division. Two PPR genes were most likely the genes for the multi fertility restoration locus Rf multi. Our data not only provide the high-resolution structure and gene complement for the 1RS.1BL translocation, but also defined targets for enhancing grain yield, biotic and abiotic stress, and fertility restoration in wheat.
Zhengang Ru; Angela Juhasz; Danping Li; Pingchuan Deng; Jing Zhao; Lifeng Gao; Kai Wang; Gabriel Keeble-Gagnere; Zujun Yang; Guangrong Li; Daowen Wang; Utpal Bose; Michelle Colgrave; Chuizheng Kong; Guangyao Zhao; Xueyong Zhang; Xu Liu; Guoqing Cui; Yuquan Wang; Zhipeng Niu; Liang Wu; Dangqun Cui; Jizeng Jia; Rudi Appels; Xiuying Kong. 1RS.1BL molecular resolution provides novel contributions to wheat improvement. 2020, 1 .
AMA StyleZhengang Ru, Angela Juhasz, Danping Li, Pingchuan Deng, Jing Zhao, Lifeng Gao, Kai Wang, Gabriel Keeble-Gagnere, Zujun Yang, Guangrong Li, Daowen Wang, Utpal Bose, Michelle Colgrave, Chuizheng Kong, Guangyao Zhao, Xueyong Zhang, Xu Liu, Guoqing Cui, Yuquan Wang, Zhipeng Niu, Liang Wu, Dangqun Cui, Jizeng Jia, Rudi Appels, Xiuying Kong. 1RS.1BL molecular resolution provides novel contributions to wheat improvement. . 2020; ():1.
Chicago/Turabian StyleZhengang Ru; Angela Juhasz; Danping Li; Pingchuan Deng; Jing Zhao; Lifeng Gao; Kai Wang; Gabriel Keeble-Gagnere; Zujun Yang; Guangrong Li; Daowen Wang; Utpal Bose; Michelle Colgrave; Chuizheng Kong; Guangyao Zhao; Xueyong Zhang; Xu Liu; Guoqing Cui; Yuquan Wang; Zhipeng Niu; Liang Wu; Dangqun Cui; Jizeng Jia; Rudi Appels; Xiuying Kong. 2020. "1RS.1BL molecular resolution provides novel contributions to wheat improvement." , no. : 1.
Introgression of chromatin from Secale species into common wheat has for decades been a successful strategy for controlling the wheat diseases. The wild Secale species, Secale africanum Stapf., is a valuable source for resistance to foliar disease of wheat. A wheat-S. africanum chromosome 6Rafr substitution line displayed resistance to both powdery mildew and stripe rust at the adult-plant stage. Wheat-S. africanum chromosome 6Rafr deletion and translocation lines were produced and identified by sequential non-denaturing fluorescence in situ hybridization (ND-FISH) using multiple Oligo-based probes. Different ND-FISH patterns were observed between S. cereale 6R and S. africanum 6Rafr. With reference to the physical map of the draft genome sequence of rye inbred line Lo7, a comprehensive PCR marker analysis indicated that insertions and deletions had occurred by random exchange between chromosomes 6R and 6Rafr. A survey of the wheat- S. africanum 6Rafr lines for disease resistance indicated that a powdery mildew resistance gene(s) was present on the long arm of 6Rafr at FL0.85–1.00, and that a stripe rust resistance gene(s) was located in the terminal region of 6RafrS at FL0.95–1.00. The wheat-S. africanum 6Rafr introgression lines also displayed superior agronomic traits, indicating that the chromosome 6Rafr may have little linkage drag in the wheat background. The combination of molecular and cytogenetic methods allowed to precisely identify the chromosome rearrangements in wheat- S. africanum 6Rafr substitution, deletion and translocation lines, and compare the structural difference between chromosomes 6R and 6Rafr. The wheat- S. africanum 6Rafr lines containing gene(s) for powdery mildew and stripe rust resistance could be used as novel germplasm for wheat breeding by chromosome engineering.
Guangrong Li; Lingrong Tang; Yan Yin; Ahui Zhang; Zhihui Yu; Ennian Yang; Zongxiang Tang; Shulan Fu; Zujun Yang. Molecular dissection of Secale africanum chromosome 6Rafr in wheat enabled localization of genes for resistance to powdery mildew and stripe rust. BMC Plant Biology 2020, 20, 1 -11.
AMA StyleGuangrong Li, Lingrong Tang, Yan Yin, Ahui Zhang, Zhihui Yu, Ennian Yang, Zongxiang Tang, Shulan Fu, Zujun Yang. Molecular dissection of Secale africanum chromosome 6Rafr in wheat enabled localization of genes for resistance to powdery mildew and stripe rust. BMC Plant Biology. 2020; 20 (1):1-11.
Chicago/Turabian StyleGuangrong Li; Lingrong Tang; Yan Yin; Ahui Zhang; Zhihui Yu; Ennian Yang; Zongxiang Tang; Shulan Fu; Zujun Yang. 2020. "Molecular dissection of Secale africanum chromosome 6Rafr in wheat enabled localization of genes for resistance to powdery mildew and stripe rust." BMC Plant Biology 20, no. 1: 1-11.
A physical map of Secale cereale chromosome 6R was constructed using deletion mapping, and a new stripe rust resistance gene Yr83 was mapped to the deletion bin of FL 0.73–1.00 of 6RL. Rye (Secale cereale L., RR) possesses valuable genes for wheat improvement. In the current study, we report a resistance gene conferring stripe rust resistance effective from seedling to adult plant stages located on chromosome 6R. This chromosome was derived from triticale line T-701 and also carries highly effective resistance to the cereal cyst nematode species Heterodera avenae Woll. A wheat-rye 6R(6D) disomic substitution line exhibited high levels of seedling resistance to Australian pathotypes of the stripe rust (Puccinia striiformis f. sp. tritici; Pst) pathogen and showed an even greater resistance to the Chinese Pst pathotypes in the field. Ten chromosome 6R deletion lines and five wheat-rye 6R translocation lines were developed earlier in the attempt to transfer the nematode resistance gene to wheat and used herein to map the stripe rust resistance gene. These lines were subsequently characterized by sequential multicolor fluorescence in situ hybridization (mc-FISH), genomic in situ hybridization (GISH), mc-GISH, PCR-based landmark unique gene (PLUG), and chromosome 6R-specific length amplified fragment sequencing (SLAF-Seq) marker analyses to physically map the stripe rust resistance gene. The new stripe rust resistance locus was located in a chromosomal bin with fraction length (FL) 0.73–1.00 on 6RL and was named Yr83. A wheat-rye translocation line T6RL (#5) carrying the stripe rust resistance gene will be useful as a new germplasm in breeding for resistance.
Jianbo Li; Ian Dundas; Chong Dong; Guangrong Li; Richard Trethowan; Zujun Yang; Sami Hoxha; Peng Zhang. Identification and characterization of a new stripe rust resistance gene Yr83 on rye chromosome 6R in wheat. Theoretical and Applied Genetics 2020, 133, 1095 -1107.
AMA StyleJianbo Li, Ian Dundas, Chong Dong, Guangrong Li, Richard Trethowan, Zujun Yang, Sami Hoxha, Peng Zhang. Identification and characterization of a new stripe rust resistance gene Yr83 on rye chromosome 6R in wheat. Theoretical and Applied Genetics. 2020; 133 (4):1095-1107.
Chicago/Turabian StyleJianbo Li; Ian Dundas; Chong Dong; Guangrong Li; Richard Trethowan; Zujun Yang; Sami Hoxha; Peng Zhang. 2020. "Identification and characterization of a new stripe rust resistance gene Yr83 on rye chromosome 6R in wheat." Theoretical and Applied Genetics 133, no. 4: 1095-1107.
Jianbo Li; Qiheng Chen; Peng Zhang; Tao Lang; Sami Hoxha; Guangrong Li; Zujun Yang. Comparative FISH and molecular identification of new stripe rust resistant wheat-Thinopyrum intermedium ssp. trichophorum introgression lines. The Crop Journal 2019, 7, 819 -829.
AMA StyleJianbo Li, Qiheng Chen, Peng Zhang, Tao Lang, Sami Hoxha, Guangrong Li, Zujun Yang. Comparative FISH and molecular identification of new stripe rust resistant wheat-Thinopyrum intermedium ssp. trichophorum introgression lines. The Crop Journal. 2019; 7 (6):819-829.
Chicago/Turabian StyleJianbo Li; Qiheng Chen; Peng Zhang; Tao Lang; Sami Hoxha; Guangrong Li; Zujun Yang. 2019. "Comparative FISH and molecular identification of new stripe rust resistant wheat-Thinopyrum intermedium ssp. trichophorum introgression lines." The Crop Journal 7, no. 6: 819-829.
Stripe rust, caused by Puccinia striiformis f. sp. tritici (Pst), is one of the most devastating fungal diseases of wheat worldwide. It is essential to discover more sources of stripe rust resistance genes for wheat breeding programs. Specific locus amplified fragment sequencing (SLAF-seq) is a powerful tool for the construction of high-density genetic maps. In this study, a set of 200 recombinant inbred lines (RILs) derived from a cross between wheat cultivars Chuanmai 42 (CH42) and Chuanmai 55 (CH55) was used to construct a high-density genetic map and to identify quantitative trait loci (QTLs) for stripe rust resistance using SLAF-seq technology. A genetic map of 2828.51 cM, including 21 linkage groups, contained 6732 single nucleotide polymorphism markers (SNP). Resistance QTLs were identified on chromosomes 1B, 2A, and 7B; Qyr.saas-7B was derived from CH42, whereas Qyr.saas-1B and Qyr.saas-2A were from CH55. The physical location of Qyr.saas-1B, which explained 6.24-34.22% of the phenotypic variation, overlapped with the resistance gene Yr29. Qyr.saas-7B accounted for up to 20.64% of the phenotypic variation. Qyr.saas-2A, a minor QTL, was found to be a likely new stripe rust resistance locus. A significant additive effect was observed when all three QTLs were combined. The combined resistance genes could be of value in breeding wheat for stripe rust resistance.
Manyu Yang; Guangrong Li; Hongshen Wan; Liping Li; Jun Li; Wuyun Yang; Zongjun Pu; Zujun Yang; Ennian Yang. Identification of QTLs for Stripe Rust Resistance in a Recombinant Inbred Line Population. International Journal of Molecular Sciences 2019, 20, 3410 .
AMA StyleManyu Yang, Guangrong Li, Hongshen Wan, Liping Li, Jun Li, Wuyun Yang, Zongjun Pu, Zujun Yang, Ennian Yang. Identification of QTLs for Stripe Rust Resistance in a Recombinant Inbred Line Population. International Journal of Molecular Sciences. 2019; 20 (14):3410.
Chicago/Turabian StyleManyu Yang; Guangrong Li; Hongshen Wan; Liping Li; Jun Li; Wuyun Yang; Zongjun Pu; Zujun Yang; Ennian Yang. 2019. "Identification of QTLs for Stripe Rust Resistance in a Recombinant Inbred Line Population." International Journal of Molecular Sciences 20, no. 14: 3410.
Psathyrostachys huashanica Keng (2n = 2x = 14, NsNs) is a valuable genetic resource for improved wheat breeding, because of its high fecundity, vigorous growth, and resistance to diseases. In this study, a novel wheat–P. huashanica 5Ns (5D) disomic substitution line DH66 was isolated from the F6 progeny of the heptaploid hybrid H8911 (2n = 7x = 49, AABBDDNs) and Triticum durum line Trs-372. Mitotic and meiotic observations showed that the chromosome karyotype of DH66 was 2n = 42 = 21II. Genomic in situ hybridization indicated that DH66 contained 40 wheat chromosomes and two P. huashanica chromosomes, which paired stably and were transmitted to the offspring. Fluorescence in situ hybridization showed that chromosome 5D was absent from DH66. Analysis using a 15K wheat chip demonstrated that the genotype of DH66 had strong matches with P. huashanica in terms of many single-nucleotide polymorphism (SNP) loci on the 5D chromosome, but few with line 7182 at the same SNPs. Verification using markers confirmed that a pair of wheat 5D chromosomes in DH66 were substituted by a pair of P. huashanica 5Ns chromosomes, and thus DH66 was characterized as a wheat–P. huashanica 5Ns (5D) disomic substitution line. Agronomic trait evaluations showed that, compared with its wheat parents, DH66 exhibited significant improvements, with reduced plant height and dough stability time, and superior resistance to stripe rust in the adult stage. Therefore, the novel cytogenetically stable substitution line DH66 can be used in wheat disease-resistant and high-quality breeding programs.
Jiachuang Li; Xiaoni Yao; Zujun Yang; Xueni Cheng; Fengping Yuan; Yang Liu; Jun Wu; Qunhui Yang; Jixin Zhao; Xinhong Chen. Molecular cytogenetic characterization of a novel wheat–Psathyrostachys huashanica Keng 5Ns (5D) disomic substitution line with stripe rust resistance. Molecular Breeding 2019, 39, 1 -15.
AMA StyleJiachuang Li, Xiaoni Yao, Zujun Yang, Xueni Cheng, Fengping Yuan, Yang Liu, Jun Wu, Qunhui Yang, Jixin Zhao, Xinhong Chen. Molecular cytogenetic characterization of a novel wheat–Psathyrostachys huashanica Keng 5Ns (5D) disomic substitution line with stripe rust resistance. Molecular Breeding. 2019; 39 (7):1-15.
Chicago/Turabian StyleJiachuang Li; Xiaoni Yao; Zujun Yang; Xueni Cheng; Fengping Yuan; Yang Liu; Jun Wu; Qunhui Yang; Jixin Zhao; Xinhong Chen. 2019. "Molecular cytogenetic characterization of a novel wheat–Psathyrostachys huashanica Keng 5Ns (5D) disomic substitution line with stripe rust resistance." Molecular Breeding 39, no. 7: 1-15.
To determine the composition of chromosome aberrations in a wheat‒Dasypyrum breviaristatum substitution line with seeds treated by a dose of gamma-rays (200 Gy), sequential non-denaturing fluorescence in situ hybridization (ND-FISH) with multiple oligonucleotide probes was used to screen individual plants of the mutagenized progenies. We identified 122 types of chromosome rearrangements, including centromeric, telomeric, and intercalary chromosome translocations from a total of 772 M1 and 872 M2 plants. The frequency of reciprocal translocations between B- and D-chromosomes was higher than that between A- and D-chromosomes. Eight translocations between D. breviaristatum and wheat chromosomes were also detected. The 13 stable plants with multiple chromosome translocations displayed novel agronomic traits. The newly developed materials will enhance wheat breeding programs through wheat‒Dasypyrum introgression and also facilitate future studies on the genetic and epigenetic effects of translocations in wheat genomics.
Hongjin Wang; Zhihui Yu; Guangrong Li; Zujun Yang. Diversified Chromosome Rearrangements Detected in a Wheat‒Dasypyrum breviaristatum Substitution Line Induced by Gamma-Ray Irradiation. Plants 2019, 8, 175 .
AMA StyleHongjin Wang, Zhihui Yu, Guangrong Li, Zujun Yang. Diversified Chromosome Rearrangements Detected in a Wheat‒Dasypyrum breviaristatum Substitution Line Induced by Gamma-Ray Irradiation. Plants. 2019; 8 (6):175.
Chicago/Turabian StyleHongjin Wang; Zhihui Yu; Guangrong Li; Zujun Yang. 2019. "Diversified Chromosome Rearrangements Detected in a Wheat‒Dasypyrum breviaristatum Substitution Line Induced by Gamma-Ray Irradiation." Plants 8, no. 6: 175.
Thinopyrum has been widely used to improve wheat (Triticum aestivum L.) cultivars. Non-denaturing fluorescence in situ hybridization (ND-FISH) technology using oligonucleotides (oligo) as probes provides a convenient and efficient way to identify alien chromosomes in wheat backgrounds. However, suitable ND-FISH-positive oligo probes for distinguishing Thinopyrum chromosomes from wheat are lacking. Two oligo probes, Oligo-B11 and Oligo-pThp3.93, were designed according to the published Thinopyrum ponticum (Th. ponticum)-specific repetitive sequences. Both Oligo-B11 and Oligo-pThp3.93 can be used for ND-FISH analysis and can replace conventional GISH and FISH to discriminate some chromosomes of Th. elongatum, Th. intermedium, and Th. ponticum in wheat backgrounds. The two oligo probes provide a convenient way for the utilization of Thinopyrum germplasms in future wheat breeding programs.
Wei Xi; Zongxiang Tang; Shuyao Tang; Zujun Yang; Jie Luo; Shulan Fu. New ND-FISH-Positive Oligo Probes for Identifying Thinopyrum Chromosomes in Wheat Backgrounds. International Journal of Molecular Sciences 2019, 20, 2031 .
AMA StyleWei Xi, Zongxiang Tang, Shuyao Tang, Zujun Yang, Jie Luo, Shulan Fu. New ND-FISH-Positive Oligo Probes for Identifying Thinopyrum Chromosomes in Wheat Backgrounds. International Journal of Molecular Sciences. 2019; 20 (8):2031.
Chicago/Turabian StyleWei Xi; Zongxiang Tang; Shuyao Tang; Zujun Yang; Jie Luo; Shulan Fu. 2019. "New ND-FISH-Positive Oligo Probes for Identifying Thinopyrum Chromosomes in Wheat Backgrounds." International Journal of Molecular Sciences 20, no. 8: 2031.
In wheat, a QTL QTrl.saw-2D.2 associated with the total root length was identified, presumably containing genes closely related to root development. A mapping population of 184 recombinant inbred lines derived from the cross SY95-71 × CH7034 was used to map QTL for seedling root characteristics in hydroponic culture (HC) and in soil-filled pot (SP) methods. Four traits, including maximum root length (MRL), root number (RN), total length (TRL), and root diameter (RD) were measured and used in QTL analyses. A total of 33 QTL for the four root traits were detected, 17 QTLs for TRL, six for RN, seven for MRL, and three for RD. Seven QTL were detected in both HC and SP methods, which explained 7–18% phenotypic variation. One QTL QTrl.saw-2D.2 detected in both HC and SP methods was also validated in another population comprised of 215 diverse lines. This QTL is a novel QTL that explained the highest phenotypic variation 18% in all QTL identified in the present study. Based on candidate gene and comparative genomics analyses, the QTL QTrl.saw-2D.2 may contain genes closely related to root development in wheat (Triticum aestivum L.). The two candidate genes were proposed to explore in future studies.
Xingwei Zheng; Xiaojie Wen; Ling Qiao; Jiajia Zhao; Xiaojun Zhang; Xin Li; Shuwei Zhang; Zujun Yang; Zhijian Chang; Jianli Chen; Jun Zheng. A novel QTL QTrl.saw-2D.2 associated with the total root length identified by linkage and association analyses in wheat (Triticum aestivum L.). Planta 2019, 250, 129 -143.
AMA StyleXingwei Zheng, Xiaojie Wen, Ling Qiao, Jiajia Zhao, Xiaojun Zhang, Xin Li, Shuwei Zhang, Zujun Yang, Zhijian Chang, Jianli Chen, Jun Zheng. A novel QTL QTrl.saw-2D.2 associated with the total root length identified by linkage and association analyses in wheat (Triticum aestivum L.). Planta. 2019; 250 (1):129-143.
Chicago/Turabian StyleXingwei Zheng; Xiaojie Wen; Ling Qiao; Jiajia Zhao; Xiaojun Zhang; Xin Li; Shuwei Zhang; Zujun Yang; Zhijian Chang; Jianli Chen; Jun Zheng. 2019. "A novel QTL QTrl.saw-2D.2 associated with the total root length identified by linkage and association analyses in wheat (Triticum aestivum L.)." Planta 250, no. 1: 129-143.
This study characterized and evaluated a set of wheat-Aegilops comosa introgression lines, including six additions and one substitution. A total of 47 PLUG markers and a set of cytogenetic markers specific for Ae. comosa chromosomes were established after screening 526 PLUG primer pairs and performing FISH using oligonucleotides as probes. Marker analysis confirmed that these lines were wheat-Ae. comosa 2M-7M addition lines and a 6M(6A) substitution line. The molecular and cytogenetic markers developed herein could be used to trace Ae. comosa chromatin in wheat background. In order to evaluate the breeding value of the material, disease resistance tests and agronomical trait investigations were carried out on these alien chromosome introgression lines. Disease resistance tests showed that chromosomes 2M and 7M of Ae. comosa might harbor new stripe rust and powdery mildew resistance genes, respectively, therefore, they could be used as resistance sources for wheat breeding. Investigations into agronomical traits showed that all chromosomes 2M to 7M had detrimental effects on the agronomic performance of wheat, therefore, the selection of plants with relatively negative effects should be avoided when inducing wheat-A. comosa chromosome translocations using chromosome engineering procedures.
Cheng Liu; Wenping Gong; Ran Han; Jun Guo; Guangrong Li; HaoSheng Li; Jianmin Song; Aifeng Liu; Xinyou Cao; Shengnan Zhai; Dungong Cheng; Genying Li; Zhendong Zhao; Zujun Yang; Jianjun Liu; Stephen M. Reader. Characterization, identification and evaluation of a set of wheat-Aegilops comosa chromosome lines. Scientific Reports 2019, 9, 4773 .
AMA StyleCheng Liu, Wenping Gong, Ran Han, Jun Guo, Guangrong Li, HaoSheng Li, Jianmin Song, Aifeng Liu, Xinyou Cao, Shengnan Zhai, Dungong Cheng, Genying Li, Zhendong Zhao, Zujun Yang, Jianjun Liu, Stephen M. Reader. Characterization, identification and evaluation of a set of wheat-Aegilops comosa chromosome lines. Scientific Reports. 2019; 9 (1):4773.
Chicago/Turabian StyleCheng Liu; Wenping Gong; Ran Han; Jun Guo; Guangrong Li; HaoSheng Li; Jianmin Song; Aifeng Liu; Xinyou Cao; Shengnan Zhai; Dungong Cheng; Genying Li; Zhendong Zhao; Zujun Yang; Jianjun Liu; Stephen M. Reader. 2019. "Characterization, identification and evaluation of a set of wheat-Aegilops comosa chromosome lines." Scientific Reports 9, no. 1: 4773.
Molecular markers and phenotyping have been widely used to evaluate wheat germplasm diversity. However, the feasibility of using chromosome fluorescence in situ hybridization (FISH) to evaluate wheat genetic diversity has not been well investigated. In this study, seventy-six representative Chinese wheat lines in main wheat production area were selected and investigated with multicolour FISH using Oligo-pTa535, Oligo-pSc119.2 and Oligo-(GAA)8 probes. The results indicated that wheat chromosomes can be clearly recognized by FISH. For wheat A, B and D genomes, the number of FISH types ranged from 2 to 7, 2 to 6 and 1 to 5, respectively. The average number of FISH types in the A and B genomes was higher than that in the genome D. The rye-derived 1RS chromosome in wheat background could also be clearly detected by these probes. The frequency of 1RS in Chinese wheat lines investigated was 48.7%, and most (94.6%) of them belonged to 1BL.1RS. The genetic relationships among the seventy-six Chinese wheat lines subjected to FISH were divided into three clusters, e.g., CL1, CL2 and CL3. Those wheat lines derived from Shandong and Henan Provinces were mainly located in clusters CL1 and CL3, respectively, which may suggest that the FISH type is associated with the adaptation of wheat. These results also indicated that multicolour FISH using a combination of three different oligo-probes generates sufficiently diverse hybridization patterns among wheat lines to evaluate the genetic diversity of wheat.
Jun Guo; Dan Gao; Wenping Gong; HaoSheng Li; Jianbo Li; Guangrong Li; Jianmin Song; Jianjun Liu; Zujun Yang; Cheng Liu. Genetic diversity in common wheat lines revealed by fluorescence in situ hybridization. Plant Systematics and Evolution 2019, 305, 247 -254.
AMA StyleJun Guo, Dan Gao, Wenping Gong, HaoSheng Li, Jianbo Li, Guangrong Li, Jianmin Song, Jianjun Liu, Zujun Yang, Cheng Liu. Genetic diversity in common wheat lines revealed by fluorescence in situ hybridization. Plant Systematics and Evolution. 2019; 305 (3):247-254.
Chicago/Turabian StyleJun Guo; Dan Gao; Wenping Gong; HaoSheng Li; Jianbo Li; Guangrong Li; Jianmin Song; Jianjun Liu; Zujun Yang; Cheng Liu. 2019. "Genetic diversity in common wheat lines revealed by fluorescence in situ hybridization." Plant Systematics and Evolution 305, no. 3: 247-254.
A large proportion of the genomes of grasses is comprised of tandem repeats (TRs), which include satellite DNA. A mini-satellite DNA sequence with a length of 44 bp, named Ta-3A1, was found to be highly accumulated in wheat genome, as revealed by a comprehensive sequence analysis. The physical distribution of Ta-3A1 in chromosomes 3A, 5A, 5B, 5D, and 7A of wheat was confirmed by nondenaturing fluorescence in situ hybridization (ND-FISH) after labeling the oligonucleotide probe. The analysis of monomer variants indicated that rapid sequence amplification of Ta-3A1 occurred first on chromosomes of linkage group 5, then groups 3 and 7. Comparative ND-FISH analysis suggested that rapid changes occurred in copy number and chromosomal locations of Ta-3A1 among the different species in the tribe Triticeae, which may have been associated with chromosomal rearrangements during speciation and polyploidization. The labeling and subsequent use of Ta-3A1 by ND-FISH may assist in the precise identification and documentation of novel wheat germplasm engineered by chromosome manipulation.
Tao Lang; Guangrong Li; Zhihui Yu; Jiwei Ma; Qiheng Chen; Ennian Yang; Zujun Yang. Genome-Wide Distribution of Novel Ta-3A1 Mini-Satellite Repeats and Its Use for Chromosome Identification in Wheat and Related Species. Agronomy 2019, 9, 60 .
AMA StyleTao Lang, Guangrong Li, Zhihui Yu, Jiwei Ma, Qiheng Chen, Ennian Yang, Zujun Yang. Genome-Wide Distribution of Novel Ta-3A1 Mini-Satellite Repeats and Its Use for Chromosome Identification in Wheat and Related Species. Agronomy. 2019; 9 (2):60.
Chicago/Turabian StyleTao Lang; Guangrong Li; Zhihui Yu; Jiwei Ma; Qiheng Chen; Ennian Yang; Zujun Yang. 2019. "Genome-Wide Distribution of Novel Ta-3A1 Mini-Satellite Repeats and Its Use for Chromosome Identification in Wheat and Related Species." Agronomy 9, no. 2: 60.
The wild species, Thinopyrum intermedium. (Genome StStJSJSJJ), serves as a valuable germplasm resource providing novel genes for wheat improvement. In the current study, non-denaturing fluorescence in situ hybridization (ND-FISH) with multiple probes and comparative molecular markers were applied to characterize two wheat-Th. intermedium chromosome additions. Sequential ND-FISH with new labeled Th. intermedium specific oligo-probes were used to precisely determine the chromosomal constitution of Th. intermedium, wheat—Th. intermedium partial amphiploids and addition lines Hy36 and Hy37. The ND-FISH results showed that the added JS-St translocated chromosomes in Hy36 had minor Oligo-5S ribosomal DNA (rDNA) signals at the short arm, while a pair of J-St chromosomes in Hy37 had major Oligo-pTa71 and minor Oligo-5S rDNA signals. The 90K SNP array and PCR-based molecular markers that mapped on wheat linkage group 5 and 3 facilitated the identification of Thinopyrum chromosome introgressions in the addition lines, and confirmed that added chromosomes in Hy36 and Hy37 were 5JSS.3StS and 5JS.3StS, respectively. Complete coding sequences at the paralogous puroindoline-a (Pina) loci from Th. intermedium were cloned and localized on the short arm of chromosome 5JS of Hy36. Line Hy36 showed a reduction in the hardness index, which suggested that Th. intermedium-specific Pina gene sequences may be associated with the softness trait in wheat background. The molecular cytogenetic identification of novel wheat—Th. intermedium derivatives indicated that the frequent chromosome rearrangement occurred in the progenies of wheat-Thinopyrum hybridization. The new wheat-Thinopyrum derived lines may increase the genetic diversity for wheat breeding.
Zhihui Yu; Hongjin Wang; Yunfang Xu; Yongshang Li; Tao Lang; Zujun Yang; Guangrong Li. Characterization of Chromosomal Rearrangement in New Wheat—Thinopyrum intermedium Addition Lines Carrying Thinopyrum—Specific Grain Hardness Genes. Agronomy 2019, 9, 18 .
AMA StyleZhihui Yu, Hongjin Wang, Yunfang Xu, Yongshang Li, Tao Lang, Zujun Yang, Guangrong Li. Characterization of Chromosomal Rearrangement in New Wheat—Thinopyrum intermedium Addition Lines Carrying Thinopyrum—Specific Grain Hardness Genes. Agronomy. 2019; 9 (1):18.
Chicago/Turabian StyleZhihui Yu; Hongjin Wang; Yunfang Xu; Yongshang Li; Tao Lang; Zujun Yang; Guangrong Li. 2019. "Characterization of Chromosomal Rearrangement in New Wheat—Thinopyrum intermedium Addition Lines Carrying Thinopyrum—Specific Grain Hardness Genes." Agronomy 9, no. 1: 18.