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Alrajhi A, Alharbi S, Beecham S, Alotaibi F. Regulation of root growth and elongation in wheat. FRONTIERS IN PLANT SCIENCE 2024; 15:1397337. [PMID: 38835859 PMCID: PMC11148372 DOI: 10.3389/fpls.2024.1397337] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/07/2024] [Accepted: 05/06/2024] [Indexed: 06/06/2024]
Abstract
Currently, the control of rhizosphere selection on farms has been applied to achieve enhancements in phenotype, extending from improvements in single root characteristics to the dynamic nature of entire crop systems. Several specific signals, regulatory elements, and mechanisms that regulate the initiation, morphogenesis, and growth of new lateral or adventitious root species have been identified, but much more work remains. Today, phenotyping technology drives the development of root traits. Available models for simulation can support all phenotyping decisions (root trait improvement). The detection and use of markers for quantitative trait loci (QTLs) are effective for enhancing selection efficiency and increasing reproductive genetic gains. Furthermore, QTLs may help wheat breeders select the appropriate roots for efficient nutrient acquisition. Single-nucleotide polymorphisms (SNPs) or alignment of sequences can only be helpful when they are associated with phenotypic variation for root development and elongation. Here, we focus on major root development processes and detail important new insights recently generated regarding the wheat genome. The first part of this review paper discusses the root morphology, apical meristem, transcriptional control, auxin distribution, phenotyping of the root system, and simulation models. In the second part, the molecular genetics of the wheat root system, SNPs, TFs, and QTLs related to root development as well as genome editing (GE) techniques for the improvement of root traits in wheat are discussed. Finally, we address the effect of omics strategies on root biomass production and summarize existing knowledge of the main molecular mechanisms involved in wheat root development and elongation.
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Affiliation(s)
- Abdullah Alrajhi
- King Abdulaziz City for Science and Technology (KACST), Riyadh, Saudi Arabia
- Sustainable Infrastructure and Resource Management, University of South Australia, University of South Australia Science, Technology, Engineering, and Mathematics (UniSA STEM), Mawson Lakes, SA, Australia
| | - Saif Alharbi
- The National Research and Development Center for Sustainable Agriculture (Estidamah), Riyadh, Saudi Arabia
| | - Simon Beecham
- Sustainable Infrastructure and Resource Management, University of South Australia, University of South Australia Science, Technology, Engineering, and Mathematics (UniSA STEM), Mawson Lakes, SA, Australia
| | - Fahad Alotaibi
- King Abdulaziz City for Science and Technology (KACST), Riyadh, Saudi Arabia
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Lan Y, Kuktaite R, Chawade A, Johansson E. Chasing high and stable wheat grain mineral content: Mining diverse spring genotypes under induced drought stress. PLoS One 2024; 19:e0298350. [PMID: 38359024 PMCID: PMC10868752 DOI: 10.1371/journal.pone.0298350] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/23/2023] [Accepted: 01/23/2024] [Indexed: 02/17/2024] Open
Abstract
Climate change-induced drought has an effect on the nutritional quality of wheat. Here, the impact of drought at different plant stages on mineral content in mature wheat was evaluated in 30 spring-wheat lines of diverse backgrounds (modern, old and wheat-rye-introgressions). Genotypes with rye chromosome 3R introgression showed a high accumulation of several important minerals, including Zn and Fe, and these also showed stability across drought conditions. High Se content was found in genotypes with chromosome 1R. Old cultivars (K, Mg, Na, P and S) and 2R introgression lines (Fe, Ca, Mn, Mg and Na) demonstrated high mineral yield at early and late drought, respectively. Based on the low nutritional value often reported for modern wheat and negative climate effects on the stability of mineral content and yield, genes conferring high Zn/Fe, Se, and stable mineral yield under drought at various plant stages should be explicitly explored among 3R, 1R, old and 2R genotypes, respectively.
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Affiliation(s)
- Yuzhou Lan
- Department of Plant Breeding, The Swedish University of Agricultural Sciences, Lomma, Sweden
| | - Ramune Kuktaite
- Department of Plant Breeding, The Swedish University of Agricultural Sciences, Lomma, Sweden
| | - Aakash Chawade
- Department of Plant Breeding, The Swedish University of Agricultural Sciences, Lomma, Sweden
| | - Eva Johansson
- Department of Plant Breeding, The Swedish University of Agricultural Sciences, Lomma, Sweden
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Ul Islam B, Mir S, Dar MS, Khan GH, Shikari AB, Sofi NUR, Mohiddin F, Ahangar MA, Jehangir IA, Kumar S, Singh G, Wani SH. Characterization of Pre-Breeding Wheat ( Triticum aestivum L.) Germplasm for Stripe Rust Resistance Using Field Phenotyping and Genotyping. PLANTS (BASEL, SWITZERLAND) 2023; 12:3239. [PMID: 37765402 PMCID: PMC10538134 DOI: 10.3390/plants12183239] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/12/2023] [Revised: 09/02/2023] [Accepted: 09/03/2023] [Indexed: 09/29/2023]
Abstract
Wheat is highly affected by stripe rust disease, particularly under cooler environments, and the losses can reach up to 100 percent depending on the intensity of infection and the susceptibility of the genotype. The most effective method to manage this disease is the use of resistant varieties. In the present study, 192 wheat genotypes were evaluated for stripe rust resistance under field conditions and also in a laboratory using molecular markers. These lines included pre-breeding germplasm developed for rust resistance and some high-yielding commercially grown wheat varieties. Out of 192 genotypes, 53 were found to be resistant, and 29 showed moderate resistance reaction under field conditions, whereas the remaining genotypes were all either moderately susceptible or susceptible. Under controlled conditions, out of 109 genotypes, only 12 were found to be resistant to all the six virulent/pathogenic pathotypes. Additionally, a selection of 97 genotypes were found resistant in field screening and were subjected to molecular validation using the markers linked to major R-genes, viz., Yr5, Yr10, Yr15 and Yr17. Nine genotypes possessed the Yr5 gene, twelve had the Yr10 gene, fourteen had the Yr15 gene and thirty-two had the Yr17 gene. The resistance genes studied in the current study are effective in conferring resistance against stripe rust disease. The genotypes identified as resistant under both field and controlled conditions can be used as sources in stripe rust resistance breeding programs.
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Affiliation(s)
- Basharat Ul Islam
- Division of Genetics and Plant Breeding, Faculty of Agriculture, Wadura, Sopore, Sher-e-Kashmir University of Agricultural Sciences and Technology, Srinagar 190025, Jammu and Kashmir, India; (B.U.I.); (A.B.S.)
| | - Saba Mir
- Mountain Research Centre for Field Crops, Genetics and Plant Breeding, Sher-e-Kashmir University of Agricultural Sciences and Technology, Srinagar 190025, Jammu and Kashmir, India; (S.M.); (M.S.D.); (G.H.K.); (N.u.R.S.); (F.M.); (M.A.A.); (I.A.J.)
| | - Mohammad Saleem Dar
- Mountain Research Centre for Field Crops, Genetics and Plant Breeding, Sher-e-Kashmir University of Agricultural Sciences and Technology, Srinagar 190025, Jammu and Kashmir, India; (S.M.); (M.S.D.); (G.H.K.); (N.u.R.S.); (F.M.); (M.A.A.); (I.A.J.)
| | - Gazala H. Khan
- Mountain Research Centre for Field Crops, Genetics and Plant Breeding, Sher-e-Kashmir University of Agricultural Sciences and Technology, Srinagar 190025, Jammu and Kashmir, India; (S.M.); (M.S.D.); (G.H.K.); (N.u.R.S.); (F.M.); (M.A.A.); (I.A.J.)
| | - Asif B. Shikari
- Division of Genetics and Plant Breeding, Faculty of Agriculture, Wadura, Sopore, Sher-e-Kashmir University of Agricultural Sciences and Technology, Srinagar 190025, Jammu and Kashmir, India; (B.U.I.); (A.B.S.)
| | - Najeeb ul Rehman Sofi
- Mountain Research Centre for Field Crops, Genetics and Plant Breeding, Sher-e-Kashmir University of Agricultural Sciences and Technology, Srinagar 190025, Jammu and Kashmir, India; (S.M.); (M.S.D.); (G.H.K.); (N.u.R.S.); (F.M.); (M.A.A.); (I.A.J.)
| | - Fayaz Mohiddin
- Mountain Research Centre for Field Crops, Genetics and Plant Breeding, Sher-e-Kashmir University of Agricultural Sciences and Technology, Srinagar 190025, Jammu and Kashmir, India; (S.M.); (M.S.D.); (G.H.K.); (N.u.R.S.); (F.M.); (M.A.A.); (I.A.J.)
| | - Mohammad Ashraf Ahangar
- Mountain Research Centre for Field Crops, Genetics and Plant Breeding, Sher-e-Kashmir University of Agricultural Sciences and Technology, Srinagar 190025, Jammu and Kashmir, India; (S.M.); (M.S.D.); (G.H.K.); (N.u.R.S.); (F.M.); (M.A.A.); (I.A.J.)
| | - Intikhab Aalum Jehangir
- Mountain Research Centre for Field Crops, Genetics and Plant Breeding, Sher-e-Kashmir University of Agricultural Sciences and Technology, Srinagar 190025, Jammu and Kashmir, India; (S.M.); (M.S.D.); (G.H.K.); (N.u.R.S.); (F.M.); (M.A.A.); (I.A.J.)
| | - Satish Kumar
- ICAR-Indian Institute of Wheat and Barley Research, Karnal 132001, India;
| | - Gyanendra Singh
- ICAR-Indian Institute of Wheat and Barley Research, Karnal 132001, India;
| | - Shabir H. Wani
- Mountain Research Centre for Field Crops, Genetics and Plant Breeding, Sher-e-Kashmir University of Agricultural Sciences and Technology, Srinagar 190025, Jammu and Kashmir, India; (S.M.); (M.S.D.); (G.H.K.); (N.u.R.S.); (F.M.); (M.A.A.); (I.A.J.)
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Bektas H, Hohn CE, Lukaszewski AJ, Waines JG. On the Possible Trade-Off between Shoot and Root Biomass in Wheat. PLANTS (BASEL, SWITZERLAND) 2023; 12:2513. [PMID: 37447071 DOI: 10.3390/plants12132513] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/22/2023] [Revised: 06/22/2023] [Accepted: 06/25/2023] [Indexed: 07/15/2023]
Abstract
Numerous studies have shown that under a limited water supply, a larger root biomass is associated with an increased above-ground biomass. Root biomass, while genetically controlled, is also greatly affected by the environment with varying plasticity levels. In this context, understanding the relationship between the biomass of shoots and roots appears prudent. In this study, we analyze this relationship in a large dataset collected from multiple experiments conducted up to different growth stages in bread wheat (Triticum aestivum L.) and its wild relatives. Four bread wheat mapping populations as well as wild and domesticated members of the Triticeae tribe were evaluated for the root and shoot biomass allocation patterns. In the analyzed dataset the root and shoot biomasses were directly related to each other, and to the heading date, and the correlation values increased in proportion to the length of an experiment. On average, 84.1% of the observed variation was explained by a positive correlation between shoot and root biomass. Scatter plots generated from 6353 data points from numerous experiments with different wheats suggest that at some point, further increases in root biomass negatively impact the shoot biomass. Based on these results, a preliminary study with different water availability scenarios and growth conditions was designed with two cultivars, Pavon 76 and Yecora Rojo. The duration of drought and water level significantly affected the root/shoot biomass allocation patterns. However, the responses of the two cultivars were quite different, suggesting that the point of diminishing returns in increasing root biomass may be different for different wheats, reinforcing the need to breed wheats for specific environmental challenges.
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Affiliation(s)
- Harun Bektas
- Department of Agricultural Biotechnology, Siirt University, Siirt 56100, Turkey
- Department of Botany and Plant Sciences, University of California, Riverside, CA 92521, USA
| | - Christopher E Hohn
- Department of Botany and Plant Sciences, University of California, Riverside, CA 92521, USA
| | - Adam J Lukaszewski
- Department of Botany and Plant Sciences, University of California, Riverside, CA 92521, USA
| | - John Giles Waines
- Department of Botany and Plant Sciences, University of California, Riverside, CA 92521, USA
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Korobkova VA, Bespalova LA, Yanovsky AS, Chernook AG, Kroupin PY, Arkhipov AV, Yurkina AI, Nazarova LA, Mudrova AA, Voropaeva AD, Puzyrnaya OY, Agaeva EV, Karlov GI, Divashuk MG. Permanent Spreading of 1RS.1AL and 1RS.1BL Translocations in Modern Wheat Breeding. PLANTS (BASEL, SWITZERLAND) 2023; 12:1205. [PMID: 36986893 PMCID: PMC10051305 DOI: 10.3390/plants12061205] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 02/14/2023] [Revised: 03/03/2023] [Accepted: 03/04/2023] [Indexed: 06/18/2023]
Abstract
Wheat-rye translocations 1RS.1BL and 1RS.1AL are used in bread wheat breeding worldwide because a short arm of rye chromosome 1 (1RS) when introgressed into the wheat genome confers resistance to diseases, pests and better performance under drought-stress conditions. However, in durum wheat genotypes, these translocations occur only in experimental lines, although their advantages could enhance the potential of this crop. P.P. Lukyanenko National Grain Centre (NGC) has successfully developed commercially competitive cultivars of bread and durum wheat demanded by many agricultural producers in the South of Russia for decades. Here, 94 accessions of bread and 343 accessions of durum wheat, representing lines and cultivars from collection, competitive variety trials and breeding nursery developed at NGC were screened for 1RS using PCR markers and genomic in situ hybridization. The 1RS.1BL and 1RS.1AL translocations were detected in 38 and 6 bread wheat accessions, respectively. None of the durum wheat accessions showed translocation, despite the fact that some of them had 1RS.1BL donors in their pedigree. The absence of translocations in the studied durum wheat germplasm can be caused by the negative selection of 1RS carriers at different stages of the breeding process due to low quality and difficulties in transferring rye chromatin through wheat gametes.
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Affiliation(s)
- Varvara A. Korobkova
- All-Russia Research Institute of Agricultural Biotechnology, 127550 Moscow, Russia
| | - Ludmila A. Bespalova
- P.P. Lukyanenko National Grain Centre, Department of Breeding and Seed Production of Wheat and Triticale, Central Estate of KNIISH, 350012 Krasnodar, Russia
| | - Aleksey S. Yanovsky
- P.P. Lukyanenko National Grain Centre, Department of Breeding and Seed Production of Wheat and Triticale, Central Estate of KNIISH, 350012 Krasnodar, Russia
| | | | - Pavel Yu. Kroupin
- All-Russia Research Institute of Agricultural Biotechnology, 127550 Moscow, Russia
| | - Andrey V. Arkhipov
- All-Russia Research Institute of Agricultural Biotechnology, 127550 Moscow, Russia
| | - Anna I. Yurkina
- All-Russia Research Institute of Agricultural Biotechnology, 127550 Moscow, Russia
| | - Lubov A. Nazarova
- All-Russia Research Institute of Agricultural Biotechnology, 127550 Moscow, Russia
| | - Aleksandra A. Mudrova
- P.P. Lukyanenko National Grain Centre, Department of Breeding and Seed Production of Wheat and Triticale, Central Estate of KNIISH, 350012 Krasnodar, Russia
| | - Anastasiya D. Voropaeva
- P.P. Lukyanenko National Grain Centre, Department of Breeding and Seed Production of Wheat and Triticale, Central Estate of KNIISH, 350012 Krasnodar, Russia
| | - Olga Yu. Puzyrnaya
- P.P. Lukyanenko National Grain Centre, Department of Breeding and Seed Production of Wheat and Triticale, Central Estate of KNIISH, 350012 Krasnodar, Russia
| | - Elena V. Agaeva
- P.P. Lukyanenko National Grain Centre, Department of Breeding and Seed Production of Wheat and Triticale, Central Estate of KNIISH, 350012 Krasnodar, Russia
| | - Gennady I. Karlov
- All-Russia Research Institute of Agricultural Biotechnology, 127550 Moscow, Russia
| | - Mikhail G. Divashuk
- All-Russia Research Institute of Agricultural Biotechnology, 127550 Moscow, Russia
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6
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Kozub NO, Sozinov IO, Bidnyk HY, Demianova NO, Sozinova OI, Karelov AV, Borzykh OI, Blume YB. Identification of Genotypes with Recombinant Arm 1RS In Bread Wheat Segregating F5 Populations from Crosses Between Carriers of 1BL.1RS and 1AL.1RS. CYTOL GENET+ 2022. [DOI: 10.3103/s0095452722050061] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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Climate Change Impact on Wheat Performance—Effects on Vigour, Plant Traits and Yield from Early and Late Drought Stress in Diverse Lines. Int J Mol Sci 2022; 23:ijms23063333. [PMID: 35328754 PMCID: PMC8950129 DOI: 10.3390/ijms23063333] [Citation(s) in RCA: 10] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/26/2022] [Revised: 03/16/2022] [Accepted: 03/17/2022] [Indexed: 01/25/2023] Open
Abstract
Global climate change is threatening wheat productivity; improved yield under drought conditions is urgent. Here, diverse spring-wheat lines (modern, old and wheat-rye introgressions) were examined in an image-based early-vigour assay and a controlled-conditions (Biotron) trial that evaluated 13 traits until maturity. Early root vigour was significantly higher in the old Swedish lines (root length 8.50 cm) and introgressed lines with 1R (11.78 cm) and 1RS (9.91 cm) than in the modern (4.20 cm) and 2R (4.67 cm) lines. No significant correlation was noted between early root and shoot vigour. A higher yield was obtained under early drought stress in the 3R genotypes than in the other genotype groups, while no clear patterns were noted under late drought. Evaluating the top 10% of genotypes in terms of the stress-tolerance index for yield showed that root biomass, grains and spikes per plant were accountable for tolerance to early drought, while 1000-grain weight and flag-leaf area were accountable for tolerance to late drought. Early root vigour was determined as an important focus trait of wheat breeding for tolerance to climate-change-induced drought. The responsible genes for the trait should be searched for in these diverse lines. Additional drought-tolerance traits determined here need further elaboration to identify the responsible genes.
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Reynolds MP, Lewis JM, Ammar K, Basnet BR, Crespo-Herrera L, Crossa J, Dhugga KS, Dreisigacker S, Juliana P, Karwat H, Kishii M, Krause MR, Langridge P, Lashkari A, Mondal S, Payne T, Pequeno D, Pinto F, Sansaloni C, Schulthess U, Singh RP, Sonder K, Sukumaran S, Xiong W, Braun HJ. Harnessing translational research in wheat for climate resilience. JOURNAL OF EXPERIMENTAL BOTANY 2021; 72:5134-5157. [PMID: 34139769 PMCID: PMC8272565 DOI: 10.1093/jxb/erab256] [Citation(s) in RCA: 15] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/27/2021] [Accepted: 06/14/2021] [Indexed: 05/24/2023]
Abstract
Despite being the world's most widely grown crop, research investments in wheat (Triticum aestivum and Triticum durum) fall behind those in other staple crops. Current yield gains will not meet 2050 needs, and climate stresses compound this challenge. However, there is good evidence that heat and drought resilience can be boosted through translating promising ideas into novel breeding technologies using powerful new tools in genetics and remote sensing, for example. Such technologies can also be applied to identify climate resilience traits from among the vast and largely untapped reserve of wheat genetic resources in collections worldwide. This review describes multi-pronged research opportunities at the focus of the Heat and Drought Wheat Improvement Consortium (coordinated by CIMMYT), which together create a pipeline to boost heat and drought resilience, specifically: improving crop design targets using big data approaches; developing phenomic tools for field-based screening and research; applying genomic technologies to elucidate the bases of climate resilience traits; and applying these outputs in developing next-generation breeding methods. The global impact of these outputs will be validated through the International Wheat Improvement Network, a global germplasm development and testing system that contributes key productivity traits to approximately half of the global wheat-growing area.
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Affiliation(s)
- Matthew P Reynolds
- International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| | - Janet M Lewis
- International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| | - Karim Ammar
- International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| | - Bhoja R Basnet
- International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| | | | - José Crossa
- International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| | - Kanwarpal S Dhugga
- International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| | | | - Philomin Juliana
- International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| | - Hannes Karwat
- International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| | - Masahiro Kishii
- International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| | - Margaret R Krause
- International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| | - Peter Langridge
- School of Agriculture, Food and Wine, University of Adelaide, Waite Campus, PMB1, Glen Osmond SA 5064, Australia
- Wheat Initiative, Julius Kühn-Institute, Königin-Luise-Str. 19, 14195 Berlin, Germany
| | - Azam Lashkari
- CIMMYT-Henan Collaborative Innovation Center, Henan Agricultural University, Zhengzhou, 450002, PR China
| | - Suchismita Mondal
- International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| | - Thomas Payne
- International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| | - Diego Pequeno
- International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| | - Francisco Pinto
- International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| | - Carolina Sansaloni
- International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| | - Urs Schulthess
- CIMMYT-Henan Collaborative Innovation Center, Henan Agricultural University, Zhengzhou, 450002, PR China
| | - Ravi P Singh
- International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| | - Kai Sonder
- International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
| | | | - Wei Xiong
- CIMMYT-Henan Collaborative Innovation Center, Henan Agricultural University, Zhengzhou, 450002, PR China
| | - Hans J Braun
- International Maize and Wheat Improvement Center (CIMMYT), Texcoco, Mexico
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Ding M, Wang L, Zhan W, Sun G, Jia X, Chen S, Ding W, Yang J. Genome-wide identification and expression analysis of late embryogenesis abundant protein-encoding genes in rye (Secale cereale L.). PLoS One 2021; 16:e0249757. [PMID: 33831102 PMCID: PMC8031920 DOI: 10.1371/journal.pone.0249757] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/21/2021] [Accepted: 03/24/2021] [Indexed: 11/18/2022] Open
Abstract
Late embryogenesis abundant (LEA) proteins are members of a large and highly diverse family that play critical roles in protecting cells from abiotic stresses and maintaining plant growth and development. However, the identification and biological function of genes of Secale cereale LEA (ScLEA) have been rarely reported. In this study, we identified 112 ScLEA genes, which can be divided into eight groups and are evenly distributed on all rye chromosomes. Structure analysis revealed that members of the same group tend to be highly conserved. We identified 12 pairs of tandem duplication genes and 19 pairs of segmental duplication genes, which may be an expansion way of LEA gene family. Expression profiling analysis revealed obvious temporal and spatial specificity of ScLEA gene expression, with the highest expression levels observed in grains. According to the qRT-PCR analysis, selected ScLEA genes were regulated by various abiotic stresses, especially PEG treatment, decreased temperature, and blue light. Taken together, our results provide a reference for further functional analysis and potential utilization of the ScLEA genes in improving stress tolerance of crops.
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Affiliation(s)
- Mengyue Ding
- College of Agronomy, Henan Agricultural University, Zhengzhou, China
| | - Lijian Wang
- College of Agronomy, Henan Agricultural University, Zhengzhou, China
- Department of Criminal Science and Technology, Henan Police College, Zhengzhou, China
- * E-mail: (JY); (LW)
| | - Weimin Zhan
- College of Agronomy, Henan Agricultural University, Zhengzhou, China
| | - Guanghua Sun
- College of Agronomy, Henan Agricultural University, Zhengzhou, China
| | - Xiaolin Jia
- College of Agronomy, Henan Agricultural University, Zhengzhou, China
| | - Shizhan Chen
- College of Agronomy, Henan Agricultural University, Zhengzhou, China
| | - Wusi Ding
- College of Agronomy, Henan Agricultural University, Zhengzhou, China
| | - Jianping Yang
- College of Agronomy, Henan Agricultural University, Zhengzhou, China
- * E-mail: (JY); (LW)
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Chromosome-scale genome assembly provides insights into rye biology, evolution and agronomic potential. Nat Genet 2021; 53:564-573. [PMID: 33737754 PMCID: PMC8035072 DOI: 10.1038/s41588-021-00807-0] [Citation(s) in RCA: 95] [Impact Index Per Article: 31.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2019] [Accepted: 01/29/2021] [Indexed: 02/07/2023]
Abstract
Rye (Secale cereale L.) is an exceptionally climate-resilient cereal crop, used extensively to produce improved wheat varieties via introgressive hybridization and possessing the entire repertoire of genes necessary to enable hybrid breeding. Rye is allogamous and only recently domesticated, thus giving cultivated ryes access to a diverse and exploitable wild gene pool. To further enhance the agronomic potential of rye, we produced a chromosome-scale annotated assembly of the 7.9-gigabase rye genome and extensively validated its quality by using a suite of molecular genetic resources. We demonstrate applications of this resource with a broad range of investigations. We present findings on cultivated rye's incomplete genetic isolation from wild relatives, mechanisms of genome structural evolution, pathogen resistance, low-temperature tolerance, fertility control systems for hybrid breeding and the yield benefits of rye-wheat introgressions.
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11
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Evaluating stripe rust resistance in Indian wheat genotypes and breeding lines using molecular markers. C R Biol 2019; 342:154-174. [PMID: 31239197 DOI: 10.1016/j.crvi.2019.04.002] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/15/2018] [Revised: 04/01/2019] [Accepted: 04/02/2019] [Indexed: 11/21/2022]
Abstract
Stripe rust (yellow rust), caused by Puccinia striiformis f. sp. tritici (Pst), is a serious disease of wheat worldwide, including India. Growing resistant cultivars is the most cost-effective and eco-friendly approach to manage the disease. In this study, 70 publically available molecular markers were used to identify the distribution of 35 Yr genes in 68 wheat genotypes. Out of 35 Yr genes, 25 genes amplified the loci associated with Yr genes. Of the 35, 18 were all-stage resistance ASR (All-stage resistance) genes and 7 (Yr16, Yr18, Yr29, Yr30, Yr36, Yr46 &Yr59) were APR (Adult-plant resistance) genes. In the field tests, evaluation for stripe rust was carried out under artificial inoculation of Pst. Fifty-three wheat genotypes were found resistant to yellow rust (ITs 0), accounting for 77.94% of total entries. Coefficients of infection ranged from 0 to 60 among all wheat genotypes. Two genotypes (VL 1099 & VL 3002) were identified with maximum 15 Yr genes followed by 14 genes in VL 3010 and HI8759, respectively. Maximum number of all-stage resistance genes were identified in RKD 292 (11) followed by ten genes in DBW 216, WH 1184 and VL 3002. Maximum number of adult-plant resistance gene was identified in VL 3009 (6), HI 8759 (5) and Lassik (4) respectively. Genes Yr26 (69.2%), Yr2 (69.1%), Yr64 (61.7%), Yr24 (58.9%), Yr7 (52.9%), Yr10 (50%) and Yr 48 (48.5%) showed high frequency among selected wheat genotypes, while Yr9 (2.94%), Yr36 (2.94%), Yr60 (1.47%) and Yr32 (8.8%) were least frequent in wheat genotypes. In future breeding programs, race specific genes and non-race specific genes should be utilised to pyramid with other effective genes to develop improved wheat cultivars with high-level and durable resistance to stripe rust. Proper deployment of Yr genes and utilizing the positive interactions will be helpful for resistance breeding in wheat.
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Djanaguiraman M, Prasad PVV, Kumari J, Sehgal SK, Friebe B, Djalovic I, Chen Y, Siddique KHM, Gill BS. Alien chromosome segment from Aegilops speltoides and Dasypyrum villosum increases drought tolerance in wheat via profuse and deep root system. BMC PLANT BIOLOGY 2019; 19:242. [PMID: 31174465 PMCID: PMC6554880 DOI: 10.1186/s12870-019-1833-8] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/25/2018] [Accepted: 05/15/2019] [Indexed: 06/04/2023]
Abstract
BACKGROUND Recurrent drought associated with climate change is a major constraint to wheat (Triticum aestivum L.) productivity. This study aimed to (i) quantify the effects of addition/substitution/translocation of chromosome segments from wild relatives of wheat on the root, physiological and yield traits of hexaploid wheat under drought, and (ii) understand the mechanism(s) associated with drought tolerance or susceptibility in wheat-alien chromosome lines. METHODS A set of 48 wheat-alien chromosome lines (addition/substitution/translocation lines) with Chinese Spring background were used. Seedling root traits were studied on solid agar medium. To understand the influence of drought on the root system of adult plants, these 48 lines were grown in 150-cm columns for 65 d under full irrigation or withholding water for 58 d. To quantify the effect of drought on physiological and yield traits, the 48 lines were grown in pots under full irrigation until anthesis; after that, half of the plants were drought stressed by withholding water for 16 d before recording physiological and yield-associated traits. RESULTS The alien chromosome lines exhibited altered root architecture and decreased photochemical efficiency and seed yield and its components under drought. The wheat-alien chromosome lines T5DS·5S#3L (TA5088) with a chromosome segment from Aegilops speltoides (5S) and T5DL.5 V#3S (TA5638) with a chromosome segment from Dasypyrum villosum (5 V) were identified as drought tolerant, and the drought tolerance mechanism was associated with a deep, thin and profuse root system. CONCLUSIONS The two germplasm lines (TA5088 and TA5638) could be used in wheat breeding programs to improve drought tolerance in wheat and understand the underlying molecular genetic mechanisms of root architecture and drought tolerance.
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Affiliation(s)
- M Djanaguiraman
- Department of Agronomy, Kansas State University, Manhattan, Kansas, 66506, USA
- Department of Crop Physiology, Tamil Nadu Agricultural University, Coimbatore, 641 003, India
| | - P V V Prasad
- Department of Agronomy, Kansas State University, Manhattan, Kansas, 66506, USA.
| | - J Kumari
- ICAR-National Bureau of Plant Genetic Resources, ICAR, New Delhi, 110 012, India
| | - S K Sehgal
- Department of Agronomy, Horticulture and Plant Science, South Dakota State University, Brookings, SD, 57007, USA
| | - B Friebe
- Wheat Genetic Resource Center, Department of Plant Pathology, Kansas State University, Manhattan, Kansas, 66506, USA
| | - I Djalovic
- Institute of Field and Vegetable Crops, Novi Sad, Serbia
| | - Y Chen
- The UWA Institute of Agriculture and School of Agriculture and Environment, The University of Western Australia, Perth, WA, 6009, Australia
| | - K H M Siddique
- The UWA Institute of Agriculture and School of Agriculture and Environment, The University of Western Australia, Perth, WA, 6009, Australia
| | - B S Gill
- Wheat Genetic Resource Center, Department of Plant Pathology, Kansas State University, Manhattan, Kansas, 66506, USA
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Alahmad S, El Hassouni K, Bassi FM, Dinglasan E, Youssef C, Quarry G, Aksoy A, Mazzucotelli E, Juhász A, Able JA, Christopher J, Voss-Fels KP, Hickey LT. A Major Root Architecture QTL Responding to Water Limitation in Durum Wheat. FRONTIERS IN PLANT SCIENCE 2019; 10:436. [PMID: 31024600 PMCID: PMC6468307 DOI: 10.3389/fpls.2019.00436] [Citation(s) in RCA: 53] [Impact Index Per Article: 10.6] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/19/2018] [Accepted: 03/22/2019] [Indexed: 05/21/2023]
Abstract
The optimal root system architecture (RSA) of a crop is context dependent and critical for efficient resource capture in the soil. Narrow root growth angle promoting deeper root growth is often associated with improved access to water and nutrients in deep soils during terminal drought. RSA, therefore is a drought-adaptive trait that could minimize yield losses in regions with limited rainfall. Here, GWAS for seminal root angle (SRA) identified seven marker-trait associations clustered on chromosome 6A, representing a major quantitative trait locus (qSRA-6A) which also displayed high levels of pairwise LD (r 2 = 0.67). Subsequent haplotype analysis revealed significant differences between major groups. Candidate gene analysis revealed loci related to gravitropism, polar growth and hormonal signaling. No differences were observed for root biomass between lines carrying hap1 and hap2 for qSRA-6A, highlighting the opportunity to perform marker-assisted selection for the qSRA-6A locus and directly select for wide or narrow RSA, without influencing root biomass. Our study revealed that the genetic predisposition for deep rooting was best expressed under water-limitation, yet the root system displayed plasticity producing root growth in response to water availability in upper soil layers. We discuss the potential to deploy root architectural traits in cultivars to enhance yield stability in environments that experience limited rainfall.
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Affiliation(s)
- Samir Alahmad
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, Brisbane, QLD, Australia
| | - Khaoula El Hassouni
- Laboratory of Microbiology and Molecular Biology, Faculty of Sciences, Mohammed V University, Rabat, Morocco
- International Center for Agricultural Research in the Dry Areas, Rabat, Morocco
| | - Filippo M. Bassi
- International Center for Agricultural Research in the Dry Areas, Rabat, Morocco
| | - Eric Dinglasan
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, Brisbane, QLD, Australia
| | - Chvan Youssef
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, Brisbane, QLD, Australia
| | - Georgia Quarry
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, Brisbane, QLD, Australia
| | - Alpaslan Aksoy
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, Brisbane, QLD, Australia
| | | | - Angéla Juhász
- School of Science, Edith Cowan University, Joondalup, WA, Australia
| | - Jason A. Able
- School of Agriculture, Food & Wine, Waite Research Institute, The University of Adelaide, Urrbrae, SA, Australia
| | - Jack Christopher
- Leslie Research Facility, Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, Brisbane, QLD, Australia
| | - Kai P. Voss-Fels
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, Brisbane, QLD, Australia
| | - Lee T. Hickey
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, Brisbane, QLD, Australia
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Kozub NA, Sozinov IA, Karelov AV, Bidnyk HY, Demianova NA, Sozinova OI, Blume YB, Sozinov AA. Studying Recombination between the 1RS Arms from the Rye Petkus and Insave Involved in the 1BL.1RS and 1AL.1RS Translocations using Storage Protein Loci as Genetic Markers. CYTOL GENET+ 2018. [DOI: 10.3103/s0095452718060063] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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15
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Motsny II, Blagodarova EM, Rybalka AI. Cytogenetic characteristics of wheat lines with modified 1RS.1BL rye-wheat translocation. CYTOL GENET+ 2017. [DOI: 10.3103/s0095452717050073] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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16
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Whalley W, Binley A, Watts C, Shanahan P, Dodd I, Ober E, Ashton R, Webster C, White R, Hawkesford MJ. Methods to estimate changes in soil water for phenotyping root activity in the field. PLANT AND SOIL 2017; 415:407-422. [PMID: 32025056 PMCID: PMC6979655 DOI: 10.1007/s11104-016-3161-1] [Citation(s) in RCA: 30] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/31/2016] [Accepted: 12/20/2016] [Indexed: 05/08/2023]
Abstract
BACKGROUND AND AIMS There is an urgent need to develop new high throughput approaches to phenotype roots in the field. Excavating roots to make direct measurements is labour intensive. An alternative to excavation is to measure soil drying profiles and to infer root activity. METHODS We grew 23 lines of wheat in 2013, 2014 and 2015. In each year we estimated soil water profiles with electrical resistance tomography (ERT), electromagnetic inductance (EMI), penetrometer measurements and measurements of soil water content. We determined the relationships between the measured variable and soil water content and matric potential. RESULTS We found that ERT and penetrometer measurements were closely related to soil matric potential and produced the best discrimination between wheat lines. We found genotypic differences in depth of water uptake in soil water profiles and in the extent of surface drying. CONCLUSIONS Penetrometer measurements can provide a reliable approach to comparing soil drying profiles by different wheat lines, and genotypic rankings are repeatable across years. EMI, which is more sensitive to soil water content than matric potential, and is less effective in drier soils than the penetrometer or ERT, nevertheless can be used to rapidly screen large populations for differences in root activity.
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Affiliation(s)
| | - A. Binley
- Lancaster Environment Centre, Lancaster University, Lancaster, LA1 4YQ UK
| | - C.W. Watts
- Rothamsted Research, Harpenden, AL5 2JQ UK
| | - P. Shanahan
- Lancaster Environment Centre, Lancaster University, Lancaster, LA1 4YQ UK
| | - I.C. Dodd
- Lancaster Environment Centre, Lancaster University, Lancaster, LA1 4YQ UK
| | - E.S. Ober
- NIAB, Huntingdon Road, Cambridge, CB3 0LE UK
| | | | | | - R.P. White
- Rothamsted Research, Harpenden, AL5 2JQ UK
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Hohn CE, Lukaszewski AJ. Engineering the 1BS chromosome arm in wheat to remove the Rf (multi) locus restoring male fertility in cytoplasms of Aegilops kotschyi, Ae. uniaristata and Ae. mutica. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2016; 129:1769-1774. [PMID: 27325523 DOI: 10.1007/s00122-016-2738-7] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 01/18/2016] [Accepted: 06/04/2016] [Indexed: 06/06/2023]
Abstract
By removing the Rf (multi) locus from chromosome 1BS of wheat via chromosome engineering we were able to generate a resource for the production of male sterile wheats in three new cytoplasms. Cytoplasmic male sterility is an essential component in the development of many hybrid crops. In wheat (Triticum aestivum L.) only the cytoplasm of T. timopheevi cytoplasm has been extensively tested even though many other cytoplasms are also known to produce male sterility. Among them are the cytoplasms of Ae. kotschyi, Ae. uniaristata and Ae. mutica but here male sterility manifests itself only when the 1RS.1BL rye-wheat translocation is present in the nuclear genome. The location of the male fertility restoring gene on the chromosome arm 1BS (Rf (multi) ) has recently been determined using a set of primary recombinants of chromosome arms 1RS with 1BS. Using this knowledge the same recombinants were used to create chromosome arm 1BS in wheat with a small insert from rye that removes the restorer locus. The disomic engineered chromosome 1B1:6 assures male sterility in all three cytoplasms and any standard chromosome 1B in wheat is capable of restoring it. This newly engineered chromosome in combination with the three cytoplasms of Aegilops sp extends the range of possibilities in attempts to create a viable system for hybrid wheat production.
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Affiliation(s)
- Christopher E Hohn
- Department of Botany and Plant Sciences, University of California, Riverside, CA, 92521, USA.
| | - Adam J Lukaszewski
- Department of Botany and Plant Sciences, University of California, Riverside, CA, 92521, USA
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18
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Tomar RSS, Tiwari S, Vinod, Naik BK, Chand S, Deshmukh R, Mallick N, Singh S, Singh NK, Tomar SMS. Molecular and Morpho-Agronomical Characterization of Root Architecture at Seedling and Reproductive Stages for Drought Tolerance in Wheat. PLoS One 2016; 11:e0156528. [PMID: 27280445 PMCID: PMC4900657 DOI: 10.1371/journal.pone.0156528] [Citation(s) in RCA: 21] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/01/2015] [Accepted: 05/16/2016] [Indexed: 01/07/2023] Open
Abstract
Water availability is a major limiting factor for wheat (Triticum aestivum L.) production in rain-fed agricultural systems worldwide. Root architecture is important for water and nutrition acquisition for all crops, including wheat. A set of 158 diverse wheat genotypes of Australian (72) and Indian (86) origin were studied for morpho-agronomical traits in field under irrigated and drought stress conditions during 2010-11 and 2011-12.Out of these 31 Indian wheat genotypes comprising 28 hexaploid (Triticum aestivum L.) and 3 tetraploid (T. durum) were characterized for root traits at reproductive stage in polyvinyl chloride (PVC) pipes. Roots of drought tolerant genotypes grew upto137cm (C306) as compared to sensitive one of 63cm with a mean value of 94.8cm. Root architecture traits of four drought tolerant (C306, HW2004, HD2888 and NI5439) and drought sensitive (HD2877, HD2012, HD2851 and MACS2496) genotypes were also observed at 6 and 9 days old seedling stage. The genotypes did not show any significant variation for root traits except for longer coleoptiles and shoot and higher absorptive surface area in drought tolerant genotypes. The visible evaluation of root images using WinRhizo Tron root scanner of drought tolerant genotype HW2004 indicated compact root system with longer depth while drought sensitive genotype HD2877 exhibited higher horizontal root spread and less depth at reproductive stage. Thirty SSR markers were used to study genetic variation which ranged from 0.12 to 0.77 with an average value of 0.57. The genotypes were categorized into three subgroups as highly tolerant, sensitive, moderately sensitive and tolerant as intermediate group based on UPGMA cluster, STRUCTURE and principal coordinate analyses. The genotypic clustering was positively correlated to grouping based on root and morpho-agronomical traits. The genetic variability identified in current study demonstrated these traits can be used to improve drought tolerance and association mapping.
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Affiliation(s)
- Ram Sewak Singh Tomar
- National Research Centre on Plant Biotechnology, Indian Agricultural Research Institute, Pusa Campus, New Delhi, 110012, India
| | - Sushma Tiwari
- National Research Centre on Plant Biotechnology, Indian Agricultural Research Institute, Pusa Campus, New Delhi, 110012, India
| | - Vinod
- Division of Genetics, Indian Agricultural Research Institute, Pusa Campus, New Delhi, 110012, India
| | - Bhojaraja K. Naik
- Division of Genetics, Indian Agricultural Research Institute, Pusa Campus, New Delhi, 110012, India
| | - Suresh Chand
- School of life Sciences, Devi Ahilya Vishwa Vidyalaya, Khandwa Road, Indore, 452017, India
| | - Rupesh Deshmukh
- Departement de Phytologie, University Laval, Quebec, QC, G1V0A6, Canada
| | - Niharika Mallick
- Division of Genetics, Indian Agricultural Research Institute, Pusa Campus, New Delhi, 110012, India
| | - Sanjay Singh
- Directorate of Wheat Research, Karnal, Haryana, 132001, India
| | - Nagendra Kumar Singh
- National Research Centre on Plant Biotechnology, Indian Agricultural Research Institute, Pusa Campus, New Delhi, 110012, India
| | - S. M. S. Tomar
- Division of Genetics, Indian Agricultural Research Institute, Pusa Campus, New Delhi, 110012, India
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Tsunewaki K. Fine mapping of the first multi-fertility-restoring gene, Rf(multi), of wheat for three Aegilops plasmons, using 1BS-1RS recombinant lines. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2015; 128:723-732. [PMID: 25673141 DOI: 10.1007/s00122-015-2467-3] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 06/17/2014] [Accepted: 01/23/2015] [Indexed: 06/04/2023]
Abstract
Fertility-restoring genes, Rfv1, Rfm1 and Rfn1, respectively, for the male sterile cytoplasms of Aegilops kotschyi, Ae. mutica and Ae. uniaristata to common wheat were located on the same locus of Pavon wheat 1BS arm. The male sterile cytoplasm (plasmon) and the fertility-restoring gene are essential genetic components for breeding hybrid seed crops. This article represents information on the genetic similarity of three Aegilops plasmons usable as the male sterile cytoplasm for hybrid wheat and provides an evidence on the possible genetic unity of three fertility-restoring genes reported for these plasmons by their genetic mapping using the 1BS-1RS recombinant lines of Pavon 76 wheat on to a single subsegment of the 1BS chromosome arm less than 2.9 cM in size: the locus is designated Rf (multi) , meaning "Restoration of fertility in multiple CMS systems". Unresolved problems were discussed in the use of the present cytoplasmic male sterility-fertility restoration system for hybrid wheat breeding.
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Affiliation(s)
- Koichiro Tsunewaki
- Kyoto University Emeritus, Kasugadai 6-14-10, Nishi-ku, Kobe, 651-2276, Japan,
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20
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Howell T, Hale I, Jankuloski L, Bonafede M, Gilbert M, Dubcovsky J. Mapping a region within the 1RS.1BL translocation in common wheat affecting grain yield and canopy water status. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2014; 127:2695-709. [PMID: 25322723 PMCID: PMC4236633 DOI: 10.1007/s00122-014-2408-6] [Citation(s) in RCA: 44] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/29/2014] [Accepted: 10/01/2014] [Indexed: 05/03/2023]
Abstract
This study identifies a small distal region of the 1RS chromosome from rye that has a positive impact on wheat yield. The translocation of the short arm of rye (Secale cereale L.) chromosome one (1RS) onto wheat (Triticum aestivum L.) chromosome 1B (1RS.1BL) is used in wheat breeding programs worldwide due to its positive effect on yield, particularly under abiotic stress. Unfortunately, this translocation is associated with poor bread-making quality. To mitigate this problem, the 1RS arm was engineered by the removal and replacement of two interstitial rye segments with wheat chromatin: a distal segment to introduce the Glu-B3/Gli-B1 loci from wheat, and a proximal segment to remove the rye Sec-1 locus. We used this engineered 1RS chromosome (henceforth 1RS(WW)) to develop and evaluate two sets of 1RS/1RS(WW) near isogenic lines (NILs). Field trials showed that standard 1RS lines had significantly higher yield and better canopy water status than the 1RS(WW) NILs in both well-watered and water-stressed environments. We intercrossed the 1RS and 1RS(WW) lines and generated two additional NILs, one carrying the distal (1RS(RW)) and the other carrying the proximal (1RS(WR)) wheat segment. Lines not carrying the distal wheat region (1RS and 1RS(WR)) showed significant improvements in grain yield and canopy water status compared to NILs carrying the distal wheat segment (1RS(WW) and 1RS(RW)), indicating that the 1RS region replaced by the distal wheat segment carries the beneficial allele(s). NILs without the distal wheat segment also showed higher carbon isotope discrimination and increased stomatal conductance, suggesting that these plants had improved access to water. The 1RS(WW), 1RS(WR) and 1RS(RW) NILs have been deposited in the National Small Grains Collection.
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Affiliation(s)
- Tyson Howell
- Department of Plant Sciences, University of California, Davis, CA 95616 USA
| | - Iago Hale
- Department of Plant Sciences, University of California, Davis, CA 95616 USA
- Department of Biological Sciences, University of New Hampshire, Durham, NH 03824 USA
| | - Ljupcho Jankuloski
- Department of Plant Sciences, University of California, Davis, CA 95616 USA
- Department of Genetics and Plant Breeding, Faculty of Agricultural Sciences and Food, 1000 Skopje, Macedonia
- Plant Breeding and Genetics Section, Joint FAO/IAEA Division of Nuclear Techniques in Food and Agriculture, IAEA, 1400 Vienna, Austria
| | - Marcos Bonafede
- Department of Plant Sciences, University of California, Davis, CA 95616 USA
- Instituto de Recursos Biológicos, CIRN, Instituto Nacional de Tecnología Agropecuaria (INTA), Buenos Aires, Argentina
| | - Matthew Gilbert
- Department of Plant Sciences, University of California, Davis, CA 95616 USA
| | - Jorge Dubcovsky
- Department of Plant Sciences, University of California, Davis, CA 95616 USA
- Howard Hughes Medical Institute, Chevy Chase, MD 20815 USA
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Kozub NA, Motsnyi II, Sozinov IA, Blume YB, Sozinov AA. Mapping a new secalin locus on the rye 1RS arm. CYTOL GENET+ 2014. [DOI: 10.3103/s0095452714040021] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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22
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Hurni S, Brunner S, Buchmann G, Herren G, Jordan T, Krukowski P, Wicker T, Yahiaoui N, Mago R, Keller B. Rye Pm8 and wheat Pm3 are orthologous genes and show evolutionary conservation of resistance function against powdery mildew. THE PLANT JOURNAL : FOR CELL AND MOLECULAR BIOLOGY 2013; 76:957-69. [PMID: 24124925 DOI: 10.1111/tpj.12345] [Citation(s) in RCA: 122] [Impact Index Per Article: 11.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/15/2013] [Revised: 09/25/2013] [Accepted: 10/04/2013] [Indexed: 05/18/2023]
Abstract
The improvement of wheat through breeding has relied strongly on the use of genetic material from related wild and domesticated grass species. The 1RS chromosome arm from rye was introgressed into wheat and crossed into many wheat lines, as it improves yield and fungal disease resistance. Pm8 is a powdery mildew resistance gene on 1RS which, after widespread agricultural cultivation, is now widely overcome by adapted mildew races. Here we show by homology-based cloning and subsequent physical and genetic mapping that Pm8 is the rye orthologue of the Pm3 allelic series of mildew resistance genes in wheat. The cloned gene was functionally validated as Pm8 by transient, single-cell expression analysis and stable transformation. Sequence analysis revealed a complex mosaic of ancient haplotypes among Pm3- and Pm8-like genes from different members of the Triticeae. These results show that the two genes have evolved independently after the divergence of the species 7.5 million years ago and kept their function in mildew resistance. During this long time span the co-evolving pathogens have not overcome these genes, which is in strong contrast to the breakdown of Pm8 resistance since its introduction into commercial wheat 70 years ago. Sequence comparison revealed that evolutionary pressure acted on the same subdomains and sequence features of the two orthologous genes. This suggests that they recognize directly or indirectly the same pathogen effectors that have been conserved in the powdery mildews of wheat and rye.
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Affiliation(s)
- Severine Hurni
- Institute of Plant Biology, University of Zürich, Zollikerstrasse 107, CH-8008, Zürich, Switzerland
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Watt M, Moosavi S, Cunningham SC, Kirkegaard JA, Rebetzke GJ, Richards RA. A rapid, controlled-environment seedling root screen for wheat correlates well with rooting depths at vegetative, but not reproductive, stages at two field sites. ANNALS OF BOTANY 2013; 112:447-55. [PMID: 23821620 PMCID: PMC3698392 DOI: 10.1093/aob/mct122] [Citation(s) in RCA: 89] [Impact Index Per Article: 8.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/07/2012] [Accepted: 05/07/2013] [Indexed: 05/18/2023]
Abstract
BACKGROUND AND AIMS Root length and depth determine capture of water and nutrients by plants, and are targets for crop improvement. Here we assess a controlled-environment wheat seedling screen to determine speed, repeatability and relatedness to performance of young and adult plants in the field. METHODS Recombinant inbred lines (RILs) and diverse genotypes were grown in rolled, moist germination paper in growth cabinets, and primary root number and length were measured when leaf 1 or 2 were fully expanded. For comparison, plants were grown in the field and root systems were harvested at the two-leaf stage with either a shovel or a soil core. From about the four-leaf stage, roots were extracted with a steel coring tube only, placed directly over the plant and pushed to the required depth with a hydraulic ram attached to a tractor. KEY RESULTS In growth cabinets, repeatability was greatest (r = 0.8, P < 0.01) when the paper was maintained moist and seed weight, pathogens and germination times were controlled. Scanned total root length (slow) was strongly correlated (r = 0.7, P < 0.01) with length of the two longest seminal axile roots measured with a ruler (fast), such that 100-200 genotypes were measured per day. Correlation to field-grown roots at two sites at two leaves was positive and significant within the RILs and cultivars (r = 0.6, P = 0.01), and at one of the two sites at the five-leaf stage within the RILs (r = 0.8, P = 0.05). Measurements made in the field with a shovel or extracted soil cores were fast (5 min per core) and had significant positive correlations to scanner measurements after root washing and cleaning (>2 h per core). Field measurements at two- and five-leaf stages did not correlate with root depth at flowering. CONCLUSIONS The seedling screen was fast, repeatable and reliable for selecting lines with greater total root length in the young vegetative phase in the field. Lack of significant correlation with reproductive stage root system depth at the field sites used in this study reflected factors not captured in the screen such as time, soil properties, climate variation and plant phenology.
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Affiliation(s)
- M Watt
- CSIRO Plant Industry, Canberra, ACT, Australia.
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Christopher J, Christopher M, Jennings R, Jones S, Fletcher S, Borrell A, Manschadi AM, Jordan D, Mace E, Hammer G. QTL for root angle and number in a population developed from bread wheats (Triticum aestivum) with contrasting adaptation to water-limited environments. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2013; 126:1563-74. [PMID: 23525632 DOI: 10.1007/s00122-013-2074-0] [Citation(s) in RCA: 74] [Impact Index Per Article: 6.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/16/2012] [Accepted: 02/23/2013] [Indexed: 05/03/2023]
Abstract
Root architecture traits in wheat are important in deep soil moisture acquisition and may be used to improve adaptation to water-limited environments. The genetic architecture of two root traits, seminal root angle and seminal root number, were investigated using a doubled haploid population derived from SeriM82 and Hartog. Multiple novel quantitative trait loci (QTL) were identified, each one having a modest effect. For seminal root angle, four QTL (-log10(P) >3) were identified on 2A, 3D, 6A and 6B, and two suggestive QTL (-log10(P) >2) on 5D and 6B. For root number, two QTL were identified on 4A and 6A with four suggestive QTL on 1B, 3A, 3B and 4A. QTL for root angle and root number did not co-locate. Transgressive segregation was found for both traits. Known major height and phenology loci appear to have little effect on root angle and number. Presence or absence of the T1BL.1RS translocation did not significantly influence root angle. Broad sense heritability (h (2)) was estimated as 50 % for root angle and 31 % for root number. Root angle QTL were found to be segregating between wheat cultivars adapted to the target production region indicating potential to select for root angle in breeding programs.
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Affiliation(s)
- Jack Christopher
- University of Queensland, Queensland Alliance for Agriculture and Food Innovation (QAAFI), Leslie Research Facility, PO Box 2282, Toowoomba, QLD 4350, Australia.
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Fluch S, Kopecky D, Burg K, Šimková H, Taudien S, Petzold A, Kubaláková M, Platzer M, Berenyi M, Krainer S, Doležel J, Lelley T. Sequence composition and gene content of the short arm of rye (Secale cereale) chromosome 1. PLoS One 2012; 7:e30784. [PMID: 22328922 PMCID: PMC3273464 DOI: 10.1371/journal.pone.0030784] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/14/2011] [Accepted: 12/26/2011] [Indexed: 01/21/2023] Open
Abstract
Background The purpose of the study is to elucidate the sequence composition of the short arm of rye chromosome 1 (Secale cereale) with special focus on its gene content, because this portion of the rye genome is an integrated part of several hundreds of bread wheat varieties worldwide. Methodology/Principal Findings Multiple Displacement Amplification of 1RS DNA, obtained from flow sorted 1RS chromosomes, using 1RS ditelosomic wheat-rye addition line, and subsequent Roche 454FLX sequencing of this DNA yielded 195,313,589 bp sequence information. This quantity of sequence information resulted in 0.43× sequence coverage of the 1RS chromosome arm, permitting the identification of genes with estimated probability of 95%. A detailed analysis revealed that more than 5% of the 1RS sequence consisted of gene space, identifying at least 3,121 gene loci representing 1,882 different gene functions. Repetitive elements comprised about 72% of the 1RS sequence, Gypsy/Sabrina (13.3%) being the most abundant. More than four thousand simple sequence repeat (SSR) sites mostly located in gene related sequence reads were identified for possible marker development. The existence of chloroplast insertions in 1RS has been verified by identifying chimeric chloroplast-genomic sequence reads. Synteny analysis of 1RS to the full genomes of Oryza sativa and Brachypodium distachyon revealed that about half of the genes of 1RS correspond to the distal end of the short arm of rice chromosome 5 and the proximal region of the long arm of Brachypodium distachyon chromosome 2. Comparison of the gene content of 1RS to 1HS barley chromosome arm revealed high conservation of genes related to chromosome 5 of rice. Conclusions The present study revealed the gene content and potential gene functions on this chromosome arm and demonstrated numerous sequence elements like SSRs and gene-related sequences, which can be utilised for future research as well as in breeding of wheat and rye.
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Affiliation(s)
- Silvia Fluch
- Health and Environment Department, Bioresources, Austrian Institute of Technology (AIT), Tulln, Austria
| | - Dieter Kopecky
- Health and Environment Department, Bioresources, Austrian Institute of Technology (AIT), Tulln, Austria
| | - Kornel Burg
- Health and Environment Department, Bioresources, Austrian Institute of Technology (AIT), Tulln, Austria
- * E-mail:
| | - Hana Šimková
- Centre of the Region Haná for Biotechnological and Agricultural Research, Institute of Experimental Botany, Olomouc, Czech Republic
| | - Stefan Taudien
- Leibniz Institute for Age Research (Fritz Lipmann Institute), Jena, Germany
| | - Andreas Petzold
- Leibniz Institute for Age Research (Fritz Lipmann Institute), Jena, Germany
| | - Marie Kubaláková
- Centre of the Region Haná for Biotechnological and Agricultural Research, Institute of Experimental Botany, Olomouc, Czech Republic
| | - Matthias Platzer
- Leibniz Institute for Age Research (Fritz Lipmann Institute), Jena, Germany
| | - Maria Berenyi
- Health and Environment Department, Bioresources, Austrian Institute of Technology (AIT), Tulln, Austria
| | - Siegfried Krainer
- Health and Environment Department, Bioresources, Austrian Institute of Technology (AIT), Tulln, Austria
| | - Jaroslav Doležel
- Centre of the Region Haná for Biotechnological and Agricultural Research, Institute of Experimental Botany, Olomouc, Czech Republic
| | - Tamas Lelley
- Department of Agrobiotechnology, Institute for Biotechnology in Plant Production (IFA-Tulln), University of Natural Resources and Applied Life Sciences (BOKU), Vienna, Austria
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Farré A, Lacasa Benito I, Cistué L, de Jong JH, Romagosa I, Jansen J. Linkage map construction involving a reciprocal translocation. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2011; 122:1029-37. [PMID: 21153624 PMCID: PMC3043263 DOI: 10.1007/s00122-010-1507-2] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/19/2010] [Accepted: 11/25/2010] [Indexed: 05/20/2023]
Abstract
This paper is concerned with a novel statistical-genetic approach for the construction of linkage maps in populations obtained from reciprocal translocation heterozygotes of barley (Hordeum vulgare L.). Using standard linkage analysis, translocations usually lead to 'pseudo-linkage': the mixing up of markers from the chromosomes involved in the translocation into a single linkage group. Close to the translocation breakpoints recombination is severely suppressed and, as a consequence, ordering markers in those regions is not feasible. The novel strategy presented in this paper is based on (1) disentangling the "pseudo-linkage" using principal coordinate analysis, (2) separating individuals into translocated types and normal types and (3) separating markers into those close to and those more distant from the translocation breakpoints. The methods make use of a consensus map of the species involved. The final product consists of integrated linkage maps of the distal parts of the chromosomes involved in the translocation.
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Affiliation(s)
- A. Farré
- Department of Plant Production and Forest Science, University of Lleida, Lleida, Spain
- Biometris, Wageningen University and Research Centre, Wageningen, The Netherlands
| | - I. Lacasa Benito
- Department of Plant Production and Forest Science, University of Lleida, Lleida, Spain
| | - L. Cistué
- Estación Experimental de Aula Dei, CSIC, Zaragoza, Spain
| | - J. H. de Jong
- Laboratory of Genetics, Wageningen University and Research Centre, Wageningen, The Netherlands
| | - I. Romagosa
- Department of Plant Production and Forest Science, University of Lleida, Lleida, Spain
| | - J. Jansen
- Biometris, Wageningen University and Research Centre, Wageningen, The Netherlands
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Sharma S, Xu S, Ehdaie B, Hoops A, Close TJ, Lukaszewski AJ, Waines JG. Dissection of QTL effects for root traits using a chromosome arm-specific mapping population in bread wheat. TAG. THEORETICAL AND APPLIED GENETICS. THEORETISCHE UND ANGEWANDTE GENETIK 2011; 122:759-69. [PMID: 21153397 PMCID: PMC3037480 DOI: 10.1007/s00122-010-1484-5] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/25/2010] [Accepted: 10/22/2010] [Indexed: 05/18/2023]
Abstract
A high-resolution chromosome arm-specific mapping population was used in an attempt to locate/detect gene(s)/QTL for different root traits on the short arm of rye chromosome 1 (1RS) in bread wheat. This population consisted of induced homoeologous recombinants of 1RS with 1BS, each originating from a different crossover event and distinct from all other recombinants in the proportions of rye and wheat chromatin present. It provides a simple and powerful approach to detect even small QTL effects using fewer progeny. A promising empirical Bayes method was applied to estimate additive and epistatic effects for all possible marker pairs simultaneously in a single model. This method has an advantage for QTL analysis in minimizing the error variance and detecting interaction effects between loci with no main effect. A total of 15 QTL effects, 6 additive and 9 epistatic, were detected for different traits of root length and root weight in 1RS wheat. Epistatic interactions were further partitioned into inter-genomic (wheat and rye alleles) and intra-genomic (rye-rye or wheat-wheat alleles) interactions affecting various root traits. Four common regions were identified involving all the QTL for root traits. Two regions carried QTL for almost all the root traits and were responsible for all the epistatic interactions. Evidence for inter-genomic interactions is provided. Comparison of mean values supported the QTL detection.
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Affiliation(s)
- Sundrish Sharma
- Department of Botany and Plant Sciences, University of California, Riverside, CA 92521-0124 USA
- Present Address: Syngenta Seeds, Inc., Naples, FL 34114 USA
| | - Shizhong Xu
- Department of Botany and Plant Sciences, University of California, Riverside, CA 92521-0124 USA
| | - Bahman Ehdaie
- Department of Botany and Plant Sciences, University of California, Riverside, CA 92521-0124 USA
| | - Aaron Hoops
- Department of Botany and Plant Sciences, University of California, Riverside, CA 92521-0124 USA
| | - Timothy J. Close
- Department of Botany and Plant Sciences, University of California, Riverside, CA 92521-0124 USA
| | - Adam J. Lukaszewski
- Department of Botany and Plant Sciences, University of California, Riverside, CA 92521-0124 USA
| | - J. Giles Waines
- Department of Botany and Plant Sciences, University of California, Riverside, CA 92521-0124 USA
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Transfer to wheat (Triticum aestivum) of small chromosome segments from rye (Secale cereale) carrying disease resistance genes. J Appl Genet 2010; 51:115-21. [DOI: 10.1007/bf03195719] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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Sharma S, DeMason DA, Ehdaie B, Lukaszewski AJ, Waines JG. Dosage effect of the short arm of chromosome 1 of rye on root morphology and anatomy in bread wheat. JOURNAL OF EXPERIMENTAL BOTANY 2010; 61:2623-33. [PMID: 20444906 PMCID: PMC2882260 DOI: 10.1093/jxb/erq097] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/09/2009] [Revised: 02/18/2010] [Accepted: 03/22/2010] [Indexed: 05/20/2023]
Abstract
The spontaneous translocation of the short arm of chromosome 1 of rye (1RS) in bread wheat is associated with higher root biomass and grain yield. Recent studies have confirmed the presence of QTL for different root morphological traits on the 1RS arm in bread wheat. This study was conducted to address two questions in wheat root genetics. First, does the presence of the 1RS arm in bread wheat affect its root anatomy? Second, how does root morphology and anatomy of bread wheat respond to different dosages of 1RS? Near-isogenic plants with a different number (0 to 4 dosages) of 1RS translocations were studied for root morphology and anatomy. The F(1) hybrid, with single doses of the 1RS and 1AS arms, showed heterosis for root and shoot biomass. In other genotypes, with 0, 2, or 4 doses of 1RS, root biomass was incremental with the increase in the dosage of 1RS in bread wheat. This study also provided evidence of the presence of gene(s) influencing root xylem vessel number, size, and distribution in bread wheat. It was found that root vasculature follows a specific developmental pattern along the length of the tap root and 1RS dosage tends to affect the transitions differentially in different positions. This study indicated that the inherent differences in root morphology and anatomy of different 1RS lines may be advantageous compared to normal bread wheat to survive under stress conditions.
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Affiliation(s)
| | | | | | | | - J. Giles Waines
- Department of Botany and Plant Sciences, University of California, Riverside, CA 92521-0124, USA
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