TAG. Theoretical and Applied Genetics This is an RSS file. You can use it to subscribe to this data in your favourite RSS reader or to display this data on your own website or blog.

Genome dosage alteration caused by chromosome pyramiding and shuffling effects on karyotypic heterogeneity, reproductive diversity, and phenotypic variation in Zea-Tripsacum allopolyploids
Theor Appl Genet. 2024 Jan 22;137(1):28. doi: 10.1007/s00122-023-04540-6.ABSTRACTWe developed an array of Zea-Tripsacum tri-hybrid allopolyploids with multiple ploidies. We unveiled that changes in genome dosage due to the chromosomes pyramiding and shuffling of three species effects karyotypic heterogeneity, reproductive diversity, and phenotypic variation in Zea-Tripsacum allopolyploids. Polyploidy, or whole genome duplication, has played a major role in evolution and speciation. The genomic consequences of polyploidy have been extensively studied in many plants; however, the extent of chromosomal variation, genome dosag...
Source: TAG. Theoretical and Applied Genetics - January 22, 2024 Category: Genetics & Stem Cells Authors: Yingzheng Li Xu Yan Mingjun Cheng Zizhou Wu Qiyuan Zhang Saifei Duan Yong Zhou Huaxiong Li Shipeng Yang Yulin Cheng Wansong Li Lulu Xu Xiaofeng Li Ruyu He Yang Zhou Chunyan Yang Muhammad Zafar Iqbal Jianmei He Tingzhao Rong Qilin Tang Source Type: research

Fine-mapping of a major locus for Fusarium wilt resistance in flax (Linum usitatissimum L.)
Theor Appl Genet. 2024 Jan 21;137(1):27. doi: 10.1007/s00122-023-04528-2.ABSTRACTFine-mapping of a locus on chromosome 1 of flax identified an S-lectin receptor-like kinase (SRLK) as the most likely candidate for a major Fusarium wilt resistance gene. Fusarium wilt, caused by the soil-borne fungal pathogen Fusarium oxysporum f. sp. lini, is a devastating disease in flax. Genetic resistance can counteract this disease and limit its spread. To map major genes for Fusarium wilt resistance, a recombinant inbred line population of more than 700 individuals derived from a cross between resistant cultivar 'Bison' and susceptible ...
Source: TAG. Theoretical and Applied Genetics - January 21, 2024 Category: Genetics & Stem Cells Authors: S Cloutier T Edwards C Zheng H M Booker T Islam K Nabetani H R Kutcher O Molina F M You Source Type: research

Genome-wide association analysis identifies a consistent QTL for powdery mildew resistance on chromosome 3A in Nordic and Baltic spring wheat
In this study, we performed a genome-wide association study (GWAS) using extensive field trial data from multiple environments across Estonia, Latvia, Lithuania, and Norway. The study involved a diverse panel of recent wheat cultivars and breeding lines sourced from the Baltic region and Norway. We identified a major quantitative trait locus (QTL) on chromosome 3A, designated as QPm.NOBAL-3A, which consistently conferred high resistance to powdery mildew across various environments and countries. Furthermore, the consistency of the QTL haplotype effect was validated using an independent Norwegian spring wheat panel. Subseq...
Source: TAG. Theoretical and Applied Genetics - January 19, 2024 Category: Genetics & Stem Cells Authors: Min Lin Bulat Islamov Andrius Aleli ūnas Rita Armonien ė Andrii Gorash Egon Meigas Anne Ingver Ilmar Tamm Hannes Kollist Vija Strazdi ņa M āra Bleidere Gintaras Brazauskas Morten Lillemo Source Type: research

Genotyping of SNPs in bread wheat at reduced cost from pooled experiments and imputation
In this study, we propose to combine pooling and imputation and demonstrate this by simulating a hypothetical microarray for genotyping a population of recombinant inbred lines in a cost-effective and accurate manner, even for rare variants. We show that with an adequate imputation model, it is feasible to accurately predict the individual genotypes at lower cost than sample-wise genotyping and time-effectively. Moreover, we provide code resources for reproducing the results presented in this study in the form of a containerized workflow.PMID:38243086 | PMC:PMC10799138 | DOI:10.1007/s00122-023-04533-5 (Source: TAG. Theoret...
Source: TAG. Theoretical and Applied Genetics - January 19, 2024 Category: Genetics & Stem Cells Authors: Camille Clouard Carl Nettelblad Source Type: research

Identification of Increased Grain Length 1 (IGL1), a novel gene encoded by a major QTL for modulating grain length in rice
In this study, we conducted quantitative trait locus mapping to determine a genomic interval responsible for a long-grain phenotype observed in a japonica cultivar HD385. This led to the identification of a novel QTL for grain length on chromosome 3, named qIGL1 (for Increased Grain Length 1); the HD385 (Handao 385)-derived allele showed enhancement effects on grain length, and such an allele as well as NIP (Nipponbare)-derived allele was designated qigl1 HD385 and qIGL1NIP, respectively. Genetic analysis revealed that the qigl1HD385 allele displayed semidominant effects on grain length. Fine mapping further narrowed down ...
Source: TAG. Theoretical and Applied Genetics - January 18, 2024 Category: Genetics & Stem Cells Authors: Jiayu Niu Fei Wang Chengcheng Yang Qiwen Ye Jingxian Huang Yumei La Qianqian Wang Jie Dai Tiange Hu Liran Sang Peijiang Zhang Yu Zou Zhaoyu Zhai Jian Jin Dina Abdulmajid Jingjing Guo Huhui Chen Honggui La Source Type: research

Genomic and co-expression network analyses reveal candidate genes for oil accumulation based on an introgression population in Upland cotton (Gossypium hirsutum)
This study not only uncovers important genetic loci for oil accumulation in cottonseed, but also provides a set of new candidate genes that potentially influence the oil biosynthesis pathway in cottonseed.PMID:38231256 | DOI:10.1007/s00122-023-04527-3 (Source: TAG. Theoretical and Applied Genetics)
Source: TAG. Theoretical and Applied Genetics - January 17, 2024 Category: Genetics & Stem Cells Authors: Jianjiang Ma Bing Jia Yingying Bian Wenfeng Pei Jikun Song Man Wu Wenkui Wang None Kashif None Shahzad Li Wang Bingbing Zhang Pan Feng Liupeng Yang Jinfa Zhang Jiwen Yu Source Type: research

Transcriptome analysis and identification of the low potassium stress-responsive gene SiSnRK2.6 in foxtail millet (Setaria italica L.)
Theor Appl Genet. 2024 Jan 16;137(1):22. doi: 10.1007/s00122-023-04532-6.ABSTRACTThe transcriptome is beneficial for dissecting the mechanism of millet in response to low potassium stress and SiSnRK2.6 was identified as a potential target for improving low potassium stress tolerance. Foxtail millet (Setaria italica L.), which originated in China, has high nutrient utilization character. Nevertheless, the molecular mechanism of its tolerance to low potassium stress is largely unclear. In this research, the low potassium tolerant variety "Yugu28" was screened out by low potassium stress treatment, and the transcriptome of "Y...
Source: TAG. Theoretical and Applied Genetics - January 16, 2024 Category: Genetics & Stem Cells Authors: Xiaoqian Ma Najeeb Ullah Khan Shutao Dai Na Qin Zanping Han Bing Guo Junxia Li Source Type: research

A mutation in CsDWF7 gene encoding a delta7 sterol C-5(6) desaturase leads to the phenotype of super compact in cucumber (Cucumis sativus L.)
Theor Appl Genet. 2024 Jan 14;137(1):20. doi: 10.1007/s00122-023-04518-4.ABSTRACTA novel super compact mutant, scp-3, was identified using map-based cloning in cucumber. The CsDWF7 gene encoding a delta7 sterol C-5(6) desaturase was the candidate gene of scp-3. Mining dwarf genes is important in understanding stem growth in crops. However, only a small number of dwarf genes have been cloned or characterized. Here, we characterized a cucumber (Cucumis sativus L.) dwarf mutant, super compact 3 (scp-3), which displays shortened internodes and dark green leaves with a wrinkled appearance. The photosynthetic rate of scp-3 is si...
Source: TAG. Theoretical and Applied Genetics - January 14, 2024 Category: Genetics & Stem Cells Authors: Haiqiang Zhang Zichen Liu Yunxiao Wang Siyu Mu Hongzhong Yue Yanjie Luo Zhengao Zhang Yuhong Li Peng Chen Source Type: research

Bayesian discrete lognormal regression model for genomic prediction
Theor Appl Genet. 2024 Jan 14;137(1):21. doi: 10.1007/s00122-023-04526-4.ABSTRACTGenomic prediction models for quantitative traits assume continuous and normally distributed phenotypes. In this research, we proposed a novel Bayesian discrete lognormal regression model. Genomic selection is a powerful tool in modern breeding programs that uses genomic information to predict the performance of individuals and select those with desirable traits. It has revolutionized animal and plant breeding, as it allows breeders to identify the best candidates without labor-intensive and time-consuming phenotypic evaluations. While several...
Source: TAG. Theoretical and Applied Genetics - January 14, 2024 Category: Genetics & Stem Cells Authors: Abelardo Montesinos-L ópez Humberto Guti érrez-Pulido Sof ía Ramos-Pulido Jos é Cricelio Montesinos-López Osval A Montesinos-L ópez Jos é Crossa Source Type: research

Assessing the potential of genetic resource introduction into elite germplasm: a collaborative multiparental population for flint maize
Theor Appl Genet. 2024 Jan 12;137(1):19. doi: 10.1007/s00122-023-04509-5.ABSTRACTImplementing a collaborative pre-breeding multi-parental population efficiently identifies promising donor x elite pairs to enrich the flint maize elite germplasm. Genetic diversity is crucial for maintaining genetic gains and ensuring breeding programs' long-term success. In a closed breeding program, selection inevitably leads to a loss of genetic diversity. While managing diversity can delay this loss, introducing external sources of diversity is necessary to bring back favorable genetic variation. Genetic resources exhibit greater diversit...
Source: TAG. Theoretical and Applied Genetics - January 12, 2024 Category: Genetics & Stem Cells Authors: Dimitri Sanchez Antoine Allier Sarah Ben Sadoun Tristan Mary-Huard Cyril Bauland Carine Palaffre Bernard Lagard ère Delphine Madur Val érie Combes St éphane Melkior Laurent Bettinger Alain Murigneux Laurence Moreau Alain Charcosset Source Type: research

Efficient identification of QTL for agronomic traits in foxtail millet (Setaria italica) using RTM- and MLM-GWAS
Theor Appl Genet. 2024 Jan 11;137(1):18. doi: 10.1007/s00122-023-04522-8.ABSTRACTEleven QTLs for agronomic traits were identified by RTM- and MLM-GWAS, putative candidate genes were predicted and two markers for grain weight were developed and validated. Foxtail millet (Setaria italica), the second most cultivated millet crop after pearl millet, is an important grain crop in arid regions. Seven agronomic traits of 408 diverse foxtail millet accessions from 15 provinces in China were evaluated in three environments. They were clustered into two divergent groups based on genotypic data using ADMIXTURE, which was highly consi...
Source: TAG. Theoretical and Applied Genetics - January 11, 2024 Category: Genetics & Stem Cells Authors: Keli Dai Xin Wang Hanxiao Liu Pengfei Qiao Jiaxue Wang Weiping Shi Jie Guo Xianmin Diao Source Type: research

Development, identification, and utilization of wheat-tetraploid Thinopyrum elongatum 4EL translocation lines resistant to stripe rust
Theor Appl Genet. 2024 Jan 10;137(1):17. doi: 10.1007/s00122-023-04525-5.ABSTRACTThe new stripe rust resistance gene Yr4EL in tetraploid Th. elongatum was identified and transferred into common wheat via 4EL translocation lines. Tetraploid Thinopyrum elongatum is a valuable genetic resource for improving the resistance of wheat to diseases such as stripe rust, powdery mildew, and Fusarium head blight. We previously reported that chromosome 4E of the 4E (4D) substitution line carries all-stage stripe rust resistance genes. To optimize the utility of these genes in wheat breeding programs, we developed translocation lines by...
Source: TAG. Theoretical and Applied Genetics - January 10, 2024 Category: Genetics & Stem Cells Authors: Biran Gong Linfeng Chen Hao Zhang Wei Zhu Lili Xu Yiran Cheng Yi Wang Jian Zeng Xing Fan Lina Sha Haiqin Zhang Guoyue Chen Yonghong Zhou Houyang Kang Dandan Wu Source Type: research

Simulation-based establishment of base pools for a hybrid breeding program in winter rapeseed
Theor Appl Genet. 2024 Jan 8;137(1):16. doi: 10.1007/s00122-023-04519-3.ABSTRACTSimulation planned pre-breeding can increase the efficiency of starting a hybrid breeding program. Starting a hybrid breeding program commonly comprises a grouping of the initial germplasm in two pools and subsequent selection on general combining ability. Investigations on pre-breeding steps before starting the selection on general combining ability are not available. Our goals were (1) to use computer simulations on the basis of DNA markers and testcross data to plan crosses that separate genetically two initial germplasm pools of rapeseed, (...
Source: TAG. Theoretical and Applied Genetics - January 8, 2024 Category: Genetics & Stem Cells Authors: Daniel Krenzer Matthias Frisch Katrin Beckmann Tobias Kox Christian Flachenecker Amine Abbadi Rod Snowdon Eva Herzog Source Type: research

Chromosome-scale assembly and gene editing of Solanum americanum genome reveals the basis for thermotolerance and fruit anthocyanin composition
Theor Appl Genet. 2024 Jan 7;137(1):15. doi: 10.1007/s00122-023-04523-7.ABSTRACTSolanum americanum serves as a promising source of resistance genes against potato late blight and is considered as a leafy vegetable for complementary food and nutrition. The limited availability of high-quality genome assemblies and gene annotations has hindered the exploration and exploitation of stress-resistance genes in S. americanum. Here, we present a chromosome-level genome assembly of a thermotolerant S. americanum ecotype and identify a crucial heat-inducible transcription factor gene, SaHSF17, essential for heat tolerance. The CRISP...
Source: TAG. Theoretical and Applied Genetics - January 7, 2024 Category: Genetics & Stem Cells Authors: Shuojun Yu Yue Wang Tingting Li Huazhong Shi Dali Kong Jia Pang Zhiqiang Wang Huiying Meng Yang Gao Xu Wang Yechun Hong Jian-Kang Zhu Xiangqiang Zhan Zhen Wang Source Type: research