TRA1: A Locus Responsible for Controlling Agrobacterium-Mediated Transformability in Barley

Orman-Ligeza, Beata; Harwood, Wendy; Hedley, Pete E.; Hinchcliffe, Alison; Macaulay, Malcolm; Uauy, Cristóbal; Trafford, Kay

doi:10.3389/fpls.2020.00355

Cited by 14 publications

(7 citation statements)

References 71 publications

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“…2020 ; Luo and Palmgren 2021 ). TRA1 is a candidate gene determining Agrobacterium- mediated transformability of barley ( Orman-Ligeza et al. 2020 ).…”

Section: Challenges For Genome Editing Of Orphan Crops Include Improv...mentioning

confidence: 99%

Accelerated Domestication of New Crops: Yield is Key

Luo

Najafi

Correia

et al. 2022

Plant and Cell Physiology

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Sustainable agriculture in the future will depend on crops that are tolerant to biotic and abiotic stresses, require minimal input of water and nutrients, and can be cultivated with a minimal carbon footprint. Wild plants that fulfil these requirements abound in nature but are typically low yielding. Thus, replacing current high-yielding crops with less productive but resilient species will require the intractable trade-off of increasing land area under cultivation to produce the same yield. Cultivating more land reduces natural resources, reduces biodiversity, and increases our carbon footprint. Sustainable intensification can be achieved by increasing yield in underutilized or wild plant species that are already resilient but achieving this goal by conventional breeding programs may be a long-term prospect. De novo domestication of orphan or crop wild relatives using mutagenesis is an alternative and fast approach to achieve resilient crops with high yield. With new precise molecular techniques it should be possible to reach economically sustainable yields in a much shorter period of time than ever before in the history of agriculture.

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“…2020 ; Luo and Palmgren 2021 ). TRA1 is a candidate gene determining Agrobacterium- mediated transformability of barley ( Orman-Ligeza et al. 2020 ).…”

Section: Challenges For Genome Editing Of Orphan Crops Include Improv...mentioning

confidence: 99%

Accelerated Domestication of New Crops: Yield is Key

Luo

Najafi

Correia

et al. 2022

Plant and Cell Physiology

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“…is Golden Promise (GP) which is a leading cultivar in Europe. In GP, three transformation-amenability loci ( TFA1, TFA2, TFA3 ) and one locus in mutant 1460 ( TRA1 ) were investigated through genetic mapping that were found to be responsible for Agrobacterium-mediated transformation in barley (Hisano and Sato, 2016; Hisano et al, 2017; Orman-Ligeza et al, 2020).…”

Section: Introductionmentioning

confidence: 99%

Chloroplast activity provides in vitro regeneration capability in contrasting cultivars

Sirohi

Chaudhary

Baliyan

et al. 2022

Preprint

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Existence of potent in vitro regeneration system is a prerequisite for efficient genetic transformation and functional genomics of crop plants. We know little about why only some cultivars in crop plants are tissue culture friendly. In this study, tissue culture friendly cultivar Golden Promise (GP) and tissue culture resistant DWRB91(D91) were selected as contrasting cultivars to investigate the molecular basis of regeneration efficiency. Multiomics studies involving transcriptomics, proteomics, metabolomics, and biochemical analysis were performed using GP and D91 callus to unravel the regulatory mechanisms. Transcriptomics analysis revealed 1487 differentially expressed genes (DEGs), in which 795 DEGs were upregulated and 692 DEGs were downregulated in the GP-D91 transcriptome. Genes encoding proteins localized in chloroplast and involved in ROS generation were upregulated in the embryogenic calli of GP. Moreover, proteome analysis by LC-MSMS revealed 3062 protein groups and 16989 peptide groups, out of these 1586 protein groups were differentially expressed proteins (DEPs). Eventually, GC-MS based metabolomics analysis also revealed the higher activity of plastids and alterations in key metabolic processes such as sugar metabolism, fatty acid biosynthesis, and secondary metabolism. Higher accumulation of sugars, amino acids and metabolites corresponding to lignin biosynthesis were observed in GP as compared to D91.

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“…The genes underlying transformability in Golden Promise have been investigated through genetic mapping [ 18 ]. Three transformation-amenability loci in Golden Promise ( TFA1 , TFA2 , TFA3 ) and one locus in mutant 1460 ( TRA1 ) were found to be responsible for Agrobacterium -mediated transformation in barley [ 19 , 20 ]. However, the key factors determining explant choice and transformation efficiency remain elusive.…”

Section: Introductionmentioning

confidence: 99%

Identification of regulatory factors promoting embryogenic callus formation in barley through transcriptome analysis

et al. 2021

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Background Barley is known to be recalcitrant to tissue culture, which hinders genetic transformation and its biotechnological application. To date, the ideal explant for transformation remains limited to immature embryos; the mechanism underlying embryonic callus formation is elusive. Results This study aimed to uncover the different transcription regulation pathways between calli formed from immature (IME) and mature (ME) embryos through transcriptome sequencing. We showed that incubation of embryos in an auxin-rich medium caused dramatic changes in gene expression profiles within 48 h. Overall, 9330 and 11,318 differentially expressed genes (DEGs) were found in the IME and ME systems, respectively. 3880 DEGs were found to be specific to IME_0h/IME_48h, and protein phosphorylation, regulation of transcription, and oxidative-reduction processes were the most common gene ontology categories of this group. Twenty-three IAA, fourteen ARF, eight SAUR, three YUC, and four PIN genes were found to be differentially expressed during callus formation. The effect of callus-inducing medium (CIM) on IAA genes was broader in the IME system than in the ME system, indicating that auxin response participates in regulating cell reprogramming during callus formation. BBM, LEC1, and PLT2 exhibited a significant increase in expression levels in the IME system but were not activated in the ME system. WUS showed a more substantial growth trend in the IME system than in the ME system, suggesting that these embryonic, shoot, and root meristem genes play crucial roles in determining the acquisition of competency. Moreover, epigenetic regulators, including SUVH3A, SUVH2A, and HDA19B/703, exhibited differential expression patterns between the two induction systems, indicating that epigenetic reprogramming might contribute to gene expression activation/suppression in this process. Furthermore, we examined the effect of ectopic expression of HvBBM and HvWUS on Agrobacterium-mediated barley transformation. The transformation efficiency in the group expressing the PLTPpro:HvBBM + Axig1pro:HvWUS construct was increased by three times that in the control (empty vector) because of enhanced plant regeneration capacity. Conclusions We identified some regulatory factors that might contribute to the differential responses of the two explants to callus induction and provide a promising strategy to improve transformation efficiency in barley.

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TRA1: A Locus Responsible for Controlling Agrobacterium-Mediated Transformability in Barley

Cited by 14 publications

References 71 publications

Accelerated Domestication of New Crops: Yield is Key

Accelerated Domestication of New Crops: Yield is Key

Chloroplast activity provides in vitro regeneration capability in contrasting cultivars

Identification of regulatory factors promoting embryogenic callus formation in barley through transcriptome analysis

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