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Safety Assessment of Genetically Modified Feed: Is There Any Difference From Food?

Giraldo PA, Shinozuka H, Spangenberg GC, Cogan NOI, Smith KF.

Front Plant Sci. 2019 Dec 11;10:1592. doi: 10.3389/fpls.2019.01592. eCollection 2019. Review.


Generation of Epichloë Strains Expressing Fluorescent Proteins Suitable for Studying Host-Endophyte Interactions and Characterisation of a T-DNA Integration Event.

Hettiarachchige IK, Ludlow EJ, Ekanayake PN, Brohier ND, Sahab S, Sawbridge TI, Spangenberg GC, Guthridge KM.

Microorganisms. 2019 Dec 27;8(1). pii: E54. doi: 10.3390/microorganisms8010054.


Boosting Genetic Gain in Allogamous Crops via Speed Breeding and Genomic Selection.

Jighly A, Lin Z, Pembleton LW, Cogan NOI, Spangenberg GC, Hayes BJ, Daetwyler HD.

Front Plant Sci. 2019 Nov 15;10:1364. doi: 10.3389/fpls.2019.01364. eCollection 2019.


Analysis of the Indole Diterpene Gene Cluster for Biosynthesis of the Epoxy-Janthitrems in Epichloë Endophytes.

Ludlow EJ, Vassiliadis S, Ekanayake PN, Hettiarachchige IK, Reddy P, Sawbridge TI, Rochfort SJ, Spangenberg GC, Guthridge KM.

Microorganisms. 2019 Nov 13;7(11). pii: E560. doi: 10.3390/microorganisms7110560.


Using Sensors and Unmanned Aircraft Systems for High-Throughput Phenotyping of Biomass in Perennial Ryegrass Breeding Trials.

Wang J, Badenhorst P, Phelan A, Pembleton L, Shi F, Cogan N, Spangenberg G, Smith K.

Front Plant Sci. 2019 Oct 30;10:1381. doi: 10.3389/fpls.2019.01381. eCollection 2019.


Generation of a Comprehensive Transcriptome Atlas and Transcriptome Dynamics in Medicinal Cannabis.

Braich S, Baillie RC, Jewell LS, Spangenberg GC, Cogan NOI.

Sci Rep. 2019 Nov 12;9(1):16583. doi: 10.1038/s41598-019-53023-6.


A Multiple Protease Strategy to Optimise the Shotgun Proteomics of Mature Medicinal Cannabis Buds.

Vincent D, Ezernieks V, Rochfort S, Spangenberg G.

Int J Mol Sci. 2019 Nov 11;20(22). pii: E5630. doi: 10.3390/ijms20225630.


A Simple LC-MS Method for the Quantitation of Alkaloids in Endophyte-Infected Perennial Ryegrass.

Vassiliadis S, Elkins AC, Reddy P, Guthridge KM, Spangenberg GC, Rochfort SJ.

Toxins (Basel). 2019 Nov 7;11(11). pii: E649. doi: 10.3390/toxins11110649.


Improved Wheat Growth and Yield by Delayed Leaf Senescence Using Developmentally Regulated Expression of a Cytokinin Biosynthesis Gene.

Joshi S, Choukimath A, Isenegger D, Panozzo J, Spangenberg G, Kant S.

Front Plant Sci. 2019 Oct 18;10:1285. doi: 10.3389/fpls.2019.01285. eCollection 2019.


Top-Down Proteomics of Medicinal Cannabis.

Vincent D, Binos S, Rochfort S, Spangenberg G.

Proteomes. 2019 Sep 24;7(4). pii: E33. doi: 10.3390/proteomes7040033.


Tremorgenic effects and functional metabolomics analysis of lolitrem B and its biosynthetic intermediates.

Reddy P, Rochfort S, Read E, Deseo M, Jaehne E, Van Den Buuse M, Guthridge K, Combs M, Spangenberg G, Quinn J.

Sci Rep. 2019 Jun 27;9(1):9364. doi: 10.1038/s41598-019-45170-7.


Assessment of low-coverage nanopore long read sequencing for SNP genotyping in doubled haploid canola (Brassica napus L.).

Malmberg MM, Spangenberg GC, Daetwyler HD, Cogan NOI.

Sci Rep. 2019 Jun 18;9(1):8688. doi: 10.1038/s41598-019-45131-0.


Publisher Correction: Exome sequencing highlights the role of wild-relative introgression in shaping the adaptive landscape of the wheat genome.

He F, Pasam R, Shi F, Kant S, Keeble-Gagnere G, Kay P, Forrest K, Fritz A, Hucl P, Wiebe K, Knox R, Cuthbert R, Pozniak C, Akhunova A, Morrell PL, Davies JP, Webb SR, Spangenberg G, Hayes B, Daetwyler H, Tibbits J, Hayden M, Akhunov E.

Nat Genet. 2019 Jul;51(7):1194. doi: 10.1038/s41588-019-0463-2.


Tremorgenic Mycotoxins: Structure Diversity and Biological Activity.

Reddy P, Guthridge K, Vassiliadis S, Hemsworth J, Hettiarachchige I, Spangenberg G, Rochfort S.

Toxins (Basel). 2019 May 27;11(5). pii: E302. doi: 10.3390/toxins11050302. Review.


Exome sequencing highlights the role of wild-relative introgression in shaping the adaptive landscape of the wheat genome.

He F, Pasam R, Shi F, Kant S, Keeble-Gagnere G, Kay P, Forrest K, Fritz A, Hucl P, Wiebe K, Knox R, Cuthbert R, Pozniak C, Akhunova A, Morrell PL, Davies JP, Webb SR, Spangenberg G, Hayes B, Daetwyler H, Tibbits J, Hayden M, Akhunov E.

Nat Genet. 2019 May;51(5):896-904. doi: 10.1038/s41588-019-0382-2. Epub 2019 May 1. Erratum in: Nat Genet. 2019 Jul;51(7):1194.


Optimisation of Protein Extraction from Medicinal Cannabis Mature Buds for Bottom-Up Proteomics.

Vincent D, Rochfort S, Spangenberg G.

Molecules. 2019 Feb 13;24(4). pii: E659. doi: 10.3390/molecules24040659.


Development of a validated method for the qualitative and quantitative analysis of cannabinoids in plant biomass and medicinal cannabis resin extracts obtained by super-critical fluid extraction.

Elkins AC, Deseo MA, Rochfort S, Ezernieks V, Spangenberg G.

J Chromatogr B Analyt Technol Biomed Life Sci. 2019 Mar 1;1109:76-83. doi: 10.1016/j.jchromb.2019.01.027. Epub 2019 Jan 30.


Development and Application of Droplet Digital PCR Tools for the Detection of Transgenes in Pastures and Pasture-Based Products.

Giraldo PA, Cogan NOI, Spangenberg GC, Smith KF, Shinozuka H.

Front Plant Sci. 2019 Jan 8;9:1923. doi: 10.3389/fpls.2018.01923. eCollection 2018.


Toxic Indole Diterpenes from Endophyte-Infected Perennial Ryegrass Lolium perenne L.: Isolation and Stability.

Reddy P, Deseo MA, Ezernieks V, Guthridge K, Spangenberg G, Rochfort S.

Toxins (Basel). 2019 Jan 3;11(1). pii: E16. doi: 10.3390/toxins11010016.


Evaluation and Recommendations for Routine Genotyping Using Skim Whole Genome Re-sequencing in Canola.

Malmberg MM, Barbulescu DM, Drayton MC, Shinozuka M, Thakur P, Ogaji YO, Spangenberg GC, Daetwyler HD, Cogan NOI.

Front Plant Sci. 2018 Dec 7;9:1809. doi: 10.3389/fpls.2018.01809. eCollection 2018.


Genetic modification of asexual Epichloë endophytes with the perA gene for peramine biosynthesis.

Hettiarachchige IK, Elkins AC, Reddy P, Mann RC, Guthridge KM, Sawbridge TI, Forster JW, Spangenberg GC.

Mol Genet Genomics. 2019 Apr;294(2):315-328. doi: 10.1007/s00438-018-1510-x. Epub 2018 Nov 15.


Mesophyll Protoplasts and PEG-Mediated Transfections: Transient Assays and Generation of Stable Transgenic Canola Plants.

Sahab S, Hayden MJ, Mason J, Spangenberg G.

Methods Mol Biol. 2019;1864:131-152. doi: 10.1007/978-1-4939-8778-8_10.


Evaluation of endophyte toxin production and its interaction with transgenic perennial ryegrass (Lolium perenne L.) with altered expression of fructosyltransferases.

Giraldo PA, Elliott C, Badenhorst P, Kearney G, Spangenberg GC, Cogan NOI, Smith KF.

Transgenic Res. 2018 Oct;27(5):397-407. doi: 10.1007/s11248-018-0087-9. Epub 2018 Jul 20.


Genomic Prediction Using Prior Quantitative Trait Loci Information Reveals a Large Reservoir of Underutilised Blackleg Resistance in Diverse Canola (Brassica napus L.) Lines.

Fikere M, Barbulescu DM, Malmberg MM, Shi F, Koh JCO, Slater AT, MacLeod IM, Bowman PJ, Salisbury PA, Spangenberg GC, Cogan NOI, Daetwyler HD.

Plant Genome. 2018 Jul;11(2). doi: 10.3835/plantgenome2017.11.0100.


Exploitation of data from breeding programs supports rapid implementation of genomic selection for key agronomic traits in perennial ryegrass.

Pembleton LW, Inch C, Baillie RC, Drayton MC, Thakur P, Ogaji YO, Spangenberg GC, Forster JW, Daetwyler HD, Cogan NOI.

Theor Appl Genet. 2018 Sep;131(9):1891-1902. doi: 10.1007/s00122-018-3121-7. Epub 2018 Jun 2.


Zinc finger nuclease-mediated precision genome editing of an endogenous gene in hexaploid bread wheat (Triticum aestivum) using a DNA repair template.

Ran Y, Patron N, Kay P, Wong D, Buchanan M, Cao YY, Sawbridge T, Davies JP, Mason J, Webb SR, Spangenberg G, Ainley WM, Walsh TA, Hayden MJ.

Plant Biotechnol J. 2018 Dec;16(12):2088-2101. doi: 10.1111/pbi.12941. Epub 2018 May 28.


Diversity and Genome Analysis of Australian and Global Oilseed Brassica napus L. Germplasm Using Transcriptomics and Whole Genome Re-sequencing.

Malmberg MM, Shi F, Spangenberg GC, Daetwyler HD, Cogan NOI.

Front Plant Sci. 2018 Apr 19;9:508. doi: 10.3389/fpls.2018.00508. eCollection 2018.


Insights into population genetics and evolution of polyploids and their ancestors.

Jighly A, Lin Z, Forster JW, Spangenberg GC, Hayes BJ, Daetwyler HD.

Mol Ecol Resour. 2018 Apr 26. doi: 10.1111/1755-0998.12896. [Epub ahead of print]


Genotyping-by-sequencing through transcriptomics: implementation in a range of crop species with varying reproductive habits and ploidy levels.

Malmberg MM, Pembleton LW, Baillie RC, Drayton MC, Sudheesh S, Kaur S, Shinozuka H, Verma P, Spangenberg GC, Daetwyler HD, Forster JW, Cogan NOI.

Plant Biotechnol J. 2018 Apr;16(4):877-889. doi: 10.1111/pbi.12835. Epub 2017 Oct 13.


Reference transcriptome assembly and annotation for perennial ryegrass.

Shinozuka H, Cogan NOI, Spangenberg GC, Forster JW.

Genome. 2017 Dec;60(12):1086-1088. doi: 10.1139/gen-2017-0077. Epub 2017 Aug 25.


Accelerating wheat breeding for end-use quality with multi-trait genomic predictions incorporating near infrared and nuclear magnetic resonance-derived phenotypes.

Hayes BJ, Panozzo J, Walker CK, Choy AL, Kant S, Wong D, Tibbits J, Daetwyler HD, Rochfort S, Hayden MJ, Spangenberg GC.

Theor Appl Genet. 2017 Dec;130(12):2505-2519. doi: 10.1007/s00122-017-2972-7. Epub 2017 Aug 24.


Horizontal transfer of a ß-1,6-glucanase gene from an ancestral species of fungal endophyte to a cool-season grass host.

Shinozuka H, Hettiarachchige IK, Shinozuka M, Cogan NOI, Spangenberg GC, Cocks BG, Forster JW, Sawbridge TI.

Sci Rep. 2017 Aug 22;7(1):9024. doi: 10.1038/s41598-017-07886-2.


Applications of microalgal biofilms for wastewater treatment and bioenergy production.

Miranda AF, Ramkumar N, Andriotis C, Höltkemeier T, Yasmin A, Rochfort S, Wlodkowic D, Morrison P, Roddick F, Spangenberg G, Lal B, Subudhi S, Mouradov A.

Biotechnol Biofuels. 2017 May 10;10:120. doi: 10.1186/s13068-017-0798-9. eCollection 2017.


Exome sequence genotype imputation in globally diverse hexaploid wheat accessions.

Shi F, Tibbits J, Pasam RK, Kay P, Wong D, Petkowski J, Forrest KL, Hayes BJ, Akhunova A, Davies J, Webb S, Spangenberg GC, Akhunov E, Hayden MJ, Daetwyler HD.

Theor Appl Genet. 2017 Jul;130(7):1393-1404. doi: 10.1007/s00122-017-2895-3. Epub 2017 Apr 4.


Genomic and metabolic characterisation of alkaloid biosynthesis by asexual Epichloë fungal endophytes of tall fescue pasture grasses.

Ekanayake PN, Kaur J, Tian P, Rochfort SJ, Guthridge KM, Sawbridge TI, Spangenberg GC, Forster JW.

Genome. 2017 Jun;60(6):496-509. doi: 10.1139/gen-2016-0173. Epub 2017 Jan 4.


A Review of Perennial Ryegrass Endophytes and Their Potential Use in the Management of African Black Beetle in Perennial Grazing Systems in Australia.

Karpyn Esqueda M, Yen AL, Rochfort S, Guthridge KM, Powell KS, Edwards J, Spangenberg GC.

Front Plant Sci. 2017 Jan 19;8:3. doi: 10.3389/fpls.2017.00003. eCollection 2017. Review.


Genetic Gain and Inbreeding from Genomic Selection in a Simulated Commercial Breeding Program for Perennial Ryegrass.

Lin Z, Cogan NO, Pembleton LW, Spangenberg GC, Forster JW, Hayes BJ, Daetwyler HD.

Plant Genome. 2016 Mar;9(1). doi: 10.3835/plantgenome2015.06.0046.


Targeted genotyping-by-sequencing permits cost-effective identification and discrimination of pasture grass species and cultivars.

Pembleton LW, Drayton MC, Bain M, Baillie RC, Inch C, Spangenberg GC, Wang J, Forster JW, Cogan NO.

Theor Appl Genet. 2016 May;129(5):991-1005. doi: 10.1007/s00122-016-2678-2. Epub 2016 Feb 16.


Design of an F1 hybrid breeding strategy for ryegrasses based on selection of self-incompatibility locus-specific alleles.

Pembleton LW, Shinozuka H, Wang J, Spangenberg GC, Forster JW, Cogan NO.

Front Plant Sci. 2015 Sep 24;6:764. doi: 10.3389/fpls.2015.00764. eCollection 2015.


Role of microRNAs involved in plant response to nitrogen and phosphorous limiting conditions.

Nguyen GN, Rothstein SJ, Spangenberg G, Kant S.

Front Plant Sci. 2015 Aug 13;6:629. doi: 10.3389/fpls.2015.00629. eCollection 2015. Review.


Selection on Optimal Haploid Value Increases Genetic Gain and Preserves More Genetic Diversity Relative to Genomic Selection.

Daetwyler HD, Hayden MJ, Spangenberg GC, Hayes BJ.

Genetics. 2015 Aug;200(4):1341-8. doi: 10.1534/genetics.115.178038. Epub 2015 Jun 19.


Phylogenomics of asexual Epichloë fungal endophytes forming associations with perennial ryegrass.

Hettiarachchige IK, Ekanayake PN, Mann RC, Guthridge KM, Sawbridge TI, Spangenberg GC, Forster JW.

BMC Evol Biol. 2015 Apr 24;15:72. doi: 10.1186/s12862-015-0349-6.


A simple method for semi-random DNA amplicon fragmentation using the methylation-dependent restriction enzyme MspJI.

Shinozuka H, Cogan NO, Shinozuka M, Marshall A, Kay P, Lin YH, Spangenberg GC, Forster JW.

BMC Biotechnol. 2015 Apr 11;15:25. doi: 10.1186/s12896-015-0139-7.


Regulated expression of a cytokinin biosynthesis gene IPT delays leaf senescence and improves yield under rainfed and irrigated conditions in canola (Brassica napus L.).

Kant S, Burch D, Badenhorst P, Palanisamy R, Mason J, Spangenberg G.

PLoS One. 2015 Jan 20;10(1):e0116349. doi: 10.1371/journal.pone.0116349. eCollection 2015.


Flavonoids: a metabolic network mediating plants adaptation to their real estate.

Mouradov A, Spangenberg G.

Front Plant Sci. 2014 Nov 10;5:620. doi: 10.3389/fpls.2014.00620. eCollection 2014. Review.


Clovers (Trifolium spp.).

Rahimi-Ashtiani S, Sahab S, Panter S, Mason J, Spangenberg G.

Methods Mol Biol. 2015;1223:223-35. doi: 10.1007/978-1-4939-1695-5_18.


Gene discovery and molecular marker development, based on high-throughput transcript sequencing of Paspalum dilatatum Poir.

Giordano A, Cogan NO, Kaur S, Drayton M, Mouradov A, Panter S, Schrauf GE, Mason JG, Spangenberg GC.

PLoS One. 2014 Feb 10;9(2):e85050. doi: 10.1371/journal.pone.0085050. eCollection 2014.


Reduced lignin content and altered lignin composition in the warm season forage grass Paspalum dilatatum by down-regulation of a Cinnamoyl CoA reductase gene.

Giordano A, Liu Z, Panter SN, Dimech AM, Shang Y, Wijesinghe H, Fulgueras K, Ran Y, Mouradov A, Rochfort S, Patron NJ, Spangenberg GC.

Transgenic Res. 2014 Jun;23(3):503-17. doi: 10.1007/s11248-014-9784-1. Epub 2014 Feb 7.


Nucleotide diversity of vernalization and flowering-time-related genes in a germplasm collection of meadow fescue (Festuca pratensis Huds. syn. Lolium pratense (Huds.) Darbysh.).

Shinozuka H, Hand ML, Cogan NO, Spangenberg GC, Forster JW.

Ecol Evol. 2013 Nov;3(13):4415-26. doi: 10.1002/ece3.828. Epub 2013 Oct 9.


Phylogenomics of fescue grass-derived fungal endophytes based on selected nuclear genes and the mitochondrial gene complement.

Ekanayake PN, Rabinovich M, Guthridge KM, Spangenberg GC, Forster JW, Sawbridge TI.

BMC Evol Biol. 2013 Dec 12;13:270. doi: 10.1186/1471-2148-13-270.

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