An efficient protoplast-based genome editing protocol for Vitis species.

CRISPR-Cas technologies allow for precise modifications in plant genomes and promise to revolutionize agriculture. These technologies depend on the delivery of editing components into plant cells and the regeneration of fully edited plants. In vegetatively propagated plants, such as grape, protoplast culture provides one of the best avenues for producing non-chimeric and transgene-free genome-edited plants. However, poor regeneration of plants from protoplasts has hindered their implementation for genome editing. Here, we report an efficient protocol for regenerating plants from protoplasts from multiple grape varieties. By encapsulating the protoplasts in calcium alginate beads and co-culturing them with feeder cultures, the protoplasts divide to form callus colonies that regenerate into embryos and ultimately plants. This protocol worked successfully in wine and table grape (Vitis vinifera) varieties, as well as grape rootstocks and the grapevine wild relative Vitis arizonica. Moreover, by transfecting protoplasts with CRISPR-plasmid or ribonucleoprotein (RNP) complexes, we regenerated albino plants with edits in VvPHYTOENE DESATURASE gene in three varieties and in V. arizonica. The results reveal the potential of this platform to facilitate genome editing in Vitis species.

A GRF-GIF chimeric protein improves the regeneration efficiency of transgenic plants.

The potential of genome editing to improve the agronomic performance of crops is often limited by low plant regeneration efficiencies and few transformable genotypes. Here, we show that expression of a fusion protein combining wheat GROWTH-REGULATING FACTOR 4 (GRF4) and its cofactor GRF-INTERACTING FACTOR 1 (GIF1) substantially increases the efficiency and speed of regeneration in wheat, triticale and rice and increases the number of transformable wheat genotypes. GRF4-GIF1 transgenic plants were fertile and without obvious developmental defects. Moreover, GRF4-GIF1 induced efficient wheat regeneration in the absence of exogenous cytokinins, which facilitates selection of transgenic plants without selectable markers. We also combined GRF4-GIF1 with CRISPR-Cas9 genome editing and generated 30 edited wheat plants with disruptions in the gene Q (AP2L-A5). Finally, we show that a dicot GRF-GIF chimera improves regeneration efficiency in citrus, suggesting that this strategy can be applied to dicot crops.

In vitro gene expression and mRNA translocation from transformed walnut (Juglans regia) rootstocks expressing DsRED fluorescent protein to wild-type scions.

KEY MESSAGE: An in vitro grafting method was developed for examining gene translocation from rootstock to scion in walnut. Results showed the DsRED gene itself was not translocated but expressed mRNA was. Grafting is widely used in plants, especially in fruit and nut crops. Selected rootstocks can control scion growth and physiological traits, including shortening of the juvenile phase and controlling tree size. Rootstocks also can provide improved soil adaptation and pathogen resistance. Development of genetically modified (GM) fruit crops has progressed recently, but commercial cultivation is still limited due to the time required for evaluation and issues with deregulation. In this study, we evaluated the stability of DsRED marker gene expression in in vitro walnut shoots and examined translocation of the gene and its mRNA from transformed rootstock to wild-type scion. Results show that DsRED was expressed uniformly in transformed tissue-cultured shoots. When used as in vitro rootstocks, these had good graft affinity with wild-type control scion. PCR and qRT-PCR analysis showed that the DsRED gene was not transported from rootstock to scion, but the transcribed mRNA was translocated. This result provides further evidence of gene signal transport from rootstock to scion in fruit and nut crops.

Advancing Crop Transformation in the Era of Genome Editing.

Plant transformation has enabled fundamental insights into plant biology and revolutionized commercial agriculture. Unfortunately, for most crops, transformation and regeneration remain arduous even after more than 30 years of technological advances. Genome editing provides novel opportunities to enhance crop productivity but relies on genetic transformation and plant regeneration, which are bottlenecks in the process. Here, we review the state of plant transformation and point to innovations needed to enable genome editing in crops. Plant tissue culture methods need optimization and simplification for efficiency and minimization of time in culture. Currently, specialized facilities exist for crop transformation. Single-cell and robotic techniques should be developed for high-throughput genomic screens. Plant genes involved in developmental reprogramming, wound response, and/or homologous recombination should be used to boost the recovery of transformed plants. Engineering universal Agrobacterium tumefaciens strains and recruiting other microbes, such as Ensifer or Rhizobium, could facilitate delivery of DNA and proteins into plant cells. Synthetic biology should be employed for de novo design of transformation systems. Genome editing is a potential game-changer in crop genetics when plant transformation systems are optimized.

A red fluorescent protein (DsRED) from Discosoma sp. as a reporter for gene expression in walnut somatic embryos.

KEY MESSAGE: An improved scorable marker was developed for somatic embryo transformation. This method is more reliable than GFP and provides more efficient embryo selection than ß-glucuronidase assays (GUS, MUG). Reporter genes are widely used to select transformed cells and tissues. Fluorescent proteins have become an integral part of live-cell imaging research over the past 10 years. DsRED is an ideal reporter for avoiding plant chlorophyll autofluorescence and for double labeling in combination with other scorable markers. In this study, we transformed walnut somatic embryos with a construct containing the DsRED-expressing binary vector pKGW-RR to assess the effect of this red fluorescent protein visual reporter on both embryos and regenerated plants. Results showed that DsRED expression was apparent with maximum brightness at 7-10 days after initiation. Fourteen of twenty-four surviving somatic embryos were bright red. These E0 embryos generated 25 wholly fluorescent E1 embryos and 43 wholly fluorescent E2 embryos at 2 weeks intervals. The germination percentage of DsRED-positive embryos was greater than 80% and gave rise to 45 fluorescent transgenic walnut plants. The regenerated transgenic plants expressed DsRED in all tissues examined including transverse sections of vegetative organs. The percentage of transformed plants that developed roots (48.3%) was similar to control shoots (53%). For transformation of walnut somatic embryos, the DsRED-based reporter system is more stable and reliable than green fluorescent protein (GFP) and, since it is a directly read and non-destructive assay, it provides a more efficient means of monitoring transformation than ß-glucuronidase (GUS).

Symbiotic rhizobia bacteria trigger a change in localization and dynamics of the Medicago truncatula receptor kinase LYK3.

To form nitrogen-fixing symbioses, legume plants recognize a bacterial signal, Nod Factor (NF). The legume Medicago truncatula has two predicted NF receptors that direct separate downstream responses to its symbiont Sinorhizobium meliloti. NOD FACTOR PERCEPTION encodes a putative low-stringency receptor that is responsible for calcium spiking and transcriptional responses. LYSIN MOTIF RECEPTOR-LIKE KINASE3 (LYK3) encodes a putative high-stringency receptor that mediates bacterial infection. We localized green fluorescent protein (GFP)-tagged LYK3 in M. truncatula and found that it has a punctate distribution at the cell periphery consistent with a plasma membrane or membrane-tethered vesicle localization. In buffer-treated control roots, LYK3:GFP puncta are dynamic. After inoculation with compatible S. meliloti, LYK3:GFP puncta are relatively stable. We show that increased LYK3:GFP stability depends on bacterial NF and NF structure but that NF is not sufficient for the change in LYK3:GFP dynamics. In uninoculated root hairs, LYK3:GFP has little codistribution with mCherry-tagged FLOTILLIN4 (FLOT4), another punctate plasma membrane-associated protein required for infection. In inoculated root hairs, we observed an increase in FLOT4:mCherry and LYK3:GFP colocalization; both proteins localize to positionally stable puncta. We also demonstrate that the localization of tagged FLOT4 is altered in plants carrying a mutation that inactivates the kinase domain of LYK3. Our work indicates that LYK3 protein localization and dynamics are altered in response to symbiotic bacteria.

Evidence that resistance in squash mosaic comovirus coat protein-transgenic plants is affected by plant developmental stage and enhanced by combination of transgenes from different lines.

Three transgenic lines of squash hemizygous for the coat protein genes of squash mosaic virus (SqMV) were shown previously to have resistant (SqMV-127), susceptible (SqMV-22) or recovery (SqMV-3) phenotypes. Post-transcriptional gene silencing (PTGS) was the underlying mechanism for resistance of SqMV-127. Here, experiments conducted to determine the mechanism of the recovery phenotype and whether enhanced resistance could be obtained by combining transgenes from susceptible and recovery plants are reported. Upper leaves of SqMV-3 plants were sampled for Northern analysis at 17, 31 and 45 days after germination (DAG) and a proportion of plants were inoculated with SqMV. SqMV-3 plants inoculated at a young stage (17 DAG) showed susceptible or recovery phenotypes. However, a number of plants inoculated at later developmental stages (31 or 45 DAG) were resistant to infection. Resistance of recovery plants was due to PTGS that was activated at a later developmental stage, independent of virus infection. Similar results were observed with plants grown under field conditions. To investigate the interactions of transgenes, progeny of crosses between SqMV-127, -3 and -22 were inoculated with SqMV. Progeny with the transgene of line 127 were resistant. However, a number of plants with transgenes from the recovery and susceptible lines or the self-pollinated recovery line were resistant even when inoculated at a young stage. Northern analysis suggested that resistance was due to PTGS. The results reveal that the timing of PTGS and consequent resistance of the transgenic plants were affected by their developmental stage and the interaction of transgene inserts.

Comparative Virus Resistance and Fruit Yield of Transgenic Squash with Single and Multiple Coat Protein Genes.

Five transgenic squash lines expressing coat protein (CP) genes from cucumber mosaic cucumovirus (CMV), zucchini yellow mosaic potyvirus (ZYMV), and watermelon mosaic virus 2 potyvirus (WMV 2) were analyzed in the field for their reaction to mixed infections by these three viruses and for fruit production. Test plants were exposed to natural inoculations via aphids in trials simulating the introduction of viruses by secondary spread from mechanically infected susceptible border row plants. Plants of transgenic line CZW-3 expressing the CP genes from CMV, ZYMV, and WMV 2 displayed the highest level of resistance with no systemic infection, although 64% exhibited localized chlorotic dots which were mainly confined to older leaves. CZW-3 plants had a 50-fold increase in marketable yield compared to controls and the highest predicted cash returns. Plants of transgenic line ZW-20 expressing the CP genes from ZYMV and WMV 2 displayed high levels of resistance to these two potyviruses, but 22% became infected by CMV. However, ZW-20 plants provided a 40-fold increase in marketable yield relative to controls and good estimated cash returns. Three transgenic lines expressing single CP genes from either ZYMV (line Z-33), WMV 2 (line W-164) or CMV (line C-14) developed systemic symptoms similar to those of controls but showed a delay of 2 to 4 weeks before the onset of disease. Plants of transgenic line Z-33 were highly resistant to ZYMV but not to WMV 2 and CMV. Interestingly, Z-33 plants had a 20-fold increase in marketable yield compared to controls and some predicted cash returns if market sale prices were high. This study indicates that virus-resistant transgenic lines are economically viable even if they are affected by viruses other than those to which they are resistant.