The University of Queensland

The use of genome sequencing to improve crops for tropical agriculture

Okemo, Pauline, Wijesundra, Upendra, Nakandala, Upuli, Ananda, Galaihalage K.S., Vanambathina, Prameela, Hasan, Sharmin, Abdulla, Muhammad, Sharma, Priyanka, Manatunga, Sachini, Pazhany, Adhini, Kharabian Masouleh, Ardy, Nath, Onkar, Mitter, Neena, Furtado, Agnelo and Henry, Robert J. (2022). The use of genome sequencing to improve crops for tropical agriculture. Next-generation sequencing and agriculture. (pp. 59-91) edited by Philipp E. Bayer and David Edwards. Wallingford, Oxfordshire, United Kingdom: CAB International. doi: 10.1079/9781789247848.0004

Re-sequencing resources to improve starch and grain quality in rice

Subbaiyan, Gopala Krishnan, Masouleh, Ardashir K., Furtado, Agnelo, Waters, Daniel L. E. and Henry, Robert J. (2019). Re-sequencing resources to improve starch and grain quality in rice. Rice Grain Quality. (pp. 201-240) edited by Nese Sreenivasulu. New York, NY, United States: Humana Press Inc.. doi: 10.1007/978-1-4939-8914-0_12

A chromosome‐level genome of mango exclusively from long‐read sequence data

Wijesundara, Upendra Kumari, Masouleh, Ardashir Kharabian, Furtado, Agnelo, Dillon, Natalie L. and Henry, Robert J. (2024). A chromosome‐level genome of mango exclusively from long‐read sequence data. The Plant Genome, e20441. doi: 10.1002/tpg2.20441

Differentially expressed genes in Jojoba (Simmondsia chinensis) when subjected to water-stress

Al-Dossary, Othman, Furtado, Agnelo, Kharabian Masouleh, Ardashir, Alsubaie, Bader, Al-Mssallem, Ibrahim and Henry, Robert J. (2024). Differentially expressed genes in Jojoba (Simmondsia chinensis) when subjected to water-stress. Current Plant Biology, 37 100311, 100311. doi: 10.1016/j.cpb.2023.100311

An improved haplotype resolved genome reveals more rice genes

Abdullah, Muhammad, Furtado, Agnelo, Masouleh, Ardashir Kharabian, Okemo, Pauline and Henry, Robert (2024). An improved haplotype resolved genome reveals more rice genes. Tropical Plants, 3 (1). doi: 10.48130/tp-0024-0007

Loss of plastid ndh genes in an autotropic desert plant

Kharabian-Masouleh, Ardashir, Furtado, Agnelo, Alsubaie, Bader, Al-Dossary, Othman, Wu, Alex, Al-Mssalem, Ibrahim and Henry, Robert (2023). Loss of plastid ndh genes in an autotropic desert plant. Computational and Structural Biotechnology Journal, 21, 5016-5027. doi: 10.1016/j.csbj.2023.10.023

Highly sex specific gene expression in Jojoba

Alsubaie, Bader, Kharabian-Masouleh, Ardashir, Furtado, Agnelo, Al-Dossary, Othman, Al-Mssallem, Ibrahim and Henry, Robert J. (2023). Highly sex specific gene expression in Jojoba. BMC Plant Biology, 23 (1) 440, 440. doi: 10.1186/s12870-023-04444-z

Haplotype resolved chromosome level genome assembly of Citrus australis reveals disease resistance and other citrus specific genes

Nakandala, Upuli, Masouleh, Ardashir Kharabian, Smith, Malcolm W., Furtado, Agnelo, Mason, Patrick, Constantin, Lena and Henry, Robert J. (2023). Haplotype resolved chromosome level genome assembly of Citrus australis reveals disease resistance and other citrus specific genes. Horticulture Research, 10 (05) uhad058, 1-14. doi: 10.1093/hr/uhad058

Breaking the tight genetic linkage between the a1 and sh2 genes led to the development of anthocyanin-rich purple-pericarp super-sweetcorn

Anirban, Apurba, Hayward, Alice, Hong, Hung T., Masouleh, Ardashir Kharabian, Henry, Robert J. and O'Hare, Tim J. (2023). Breaking the tight genetic linkage between the a1 and sh2 genes led to the development of anthocyanin-rich purple-pericarp super-sweetcorn. Scientific Reports, 13 (1) 1050, 1-13. doi: 10.1038/s41598-023-28083-4

Sequence variations associated with novel purple-pericarp super-sweetcorn compared to its purple-pericarp maize and white super-sweetcorn parents

Anirban, Apurba, Masouleh, Ardashir Kharabian, Henry, Robert J. and O’Hare, Tim J. (2023). Sequence variations associated with novel purple-pericarp super-sweetcorn compared to its purple-pericarp maize and white super-sweetcorn parents. Molecular Genetics and Genomics, 298 (6), 1395-1405. doi: 10.1007/s00438-023-02060-y

A haplotype resolved chromosomal level avocado genome allows analysis of novel avocado genes

Nath, Onkar, Fletcher, Stephen J., Hayward, Alice, Shaw, Lindsay M., Kharabian Masouleh, Ardashir, Furtado, Agnelo, Henry, Robert J. and Mitter, Neena (2022). A haplotype resolved chromosomal level avocado genome allows analysis of novel avocado genes. Horticulture Research, 9 uhac157, 1-10. doi: 10.1093/hr/uhac157

The genome of the endangered Macadamia jansenii displays little diversity but represents an important genetic resource for plant breeding

Sharma, Priyanka, Murigneux, Valentine, Haimovitz, Jasmine, Nock, Catherine J., Tian, Wei, Kharabian Masouleh, Ardashir, Topp, Bruce, Alam, Mobashwer, Furtado, Agnelo and Henry, Robert J. (2021). The genome of the endangered Macadamia jansenii displays little diversity but represents an important genetic resource for plant breeding. Plant Direct, 5 (12) e364, e364. doi: 10.1002/pld3.364

Denovo chromosome level assembly of a plant genome from long read sequence data

Sharma, Priyanka, Kharabian Masouleh, Ardashir, Topp, Bruce, Furtado, Agnelo and Henry, Robert J. (2021). Denovo chromosome level assembly of a plant genome from long read sequence data. The Plant Journal, 109 (3), 727-736. doi: 10.1111/tpj.15583

The jojoba genome reveals wide divergence of the sex chromosomes in a dioecious plant

Al‐Dossary, Othman, Alsubaie, Bader, Kharabian‐Masouleh, Ardashir, Al‐Mssallem, Ibrahim, Furtado, Agnelo and Henry, Robert J (2021). The jojoba genome reveals wide divergence of the sex chromosomes in a dioecious plant. The Plant Journal, 108 (5), 1283-1294. doi: 10.1111/tpj.15509

Improvements in the sequencing and assembly of plant genomes

Sharma, Priyanka, Al-Dossary, Othman, Alsubaie, Bader, Al-Mssallem, Ibrahim, Nath, Onkar, Mitter, Neena, Rodrigues Alves Margarido, Gabriel, Topp, Bruce, Murigneux, Valentine, Kharabian Masouleh, Ardashir, Furtado, Agnelo and Henry, Robert J. (2021). Improvements in the sequencing and assembly of plant genomes. Gigabyte, 2021, 1-10. doi: 10.46471/gigabyte.24

Advances in detection of stress tolerance in plants through metabolomics approaches

Khan, Naeem, Ali, Shahid, Shahid, Muhammad Adnan and Kharabian-Masouleh, Ardashir (2017). Advances in detection of stress tolerance in plants through metabolomics approaches. Plant OMICS, 10 (3), 153-163. doi: 10.21475/poj.10.03.17.pne600

Variation in expression of Sub1 gene confers differential response to submergence tolerance in rice (Oryza sativa L.)

Masuduzzaman, A. S.M., Haque, Md. Maksudul, Shamsuddin, A. K.M., Salam, M. A., Kabir, Md. Shahjahan, Masouleh, Ardashir Kharabian, Haque, Md. Enamul and Ali, Ansar (2017). Variation in expression of Sub1 gene confers differential response to submergence tolerance in rice (Oryza sativa L.). Australian Journal of Crop Science, 11 (6), 757-767. doi: 10.21475/ajcs.17.11.06.p446

Molecular characterization and similarity relationships among flue-cured tobacco (Nicotiana tabacum L.) genotypes using simple sequence repeat markers

Gholizadeh, Soheila, Darvishzadeh, Reza, Mandoulakani, Babak Abdollahi, Bernousi, Iraj, Alavi, Seyed Reza and Masouleh, Ardashir Kharabian (2012). Molecular characterization and similarity relationships among flue-cured tobacco (Nicotiana tabacum L.) genotypes using simple sequence repeat markers. Notulae Botanicae Horti Agrobotanici Cluj-Napoca, 40 (2), 247-253. doi: 10.15835/nbha4027169

Callus induction and organogenesis capacity from lamina and petiole explants of Anthurium andreanum Linden (Casino and Antadra)

Raad, Mojtaba Khorrami, Zanjani, Sahar Bohluli, Shoor, Mahmoud, Hamidoghli, Yousef, Sayyad, Ali Ramezani, Kharabian-Masouleh, Ardashir and Kaviani, Behzad (2012). Callus induction and organogenesis capacity from lamina and petiole explants of Anthurium andreanum Linden (Casino and Antadra). Australian Journal of Crop Science, 6 (5), 928-937.

The effect of exogenous glycine betaine on yield of soybean [Glycine max (L.) Merr.] In two contrasting cultivars Pershing and DPX under soil salinity stress

Rezaei, Mohammad Ali, Kaviani, Behzad and Masouleh, Ardashir Kharabian (2012). The effect of exogenous glycine betaine on yield of soybean [Glycine max (L.) Merr.] In two contrasting cultivars Pershing and DPX under soil salinity stress. Plant OMICS, 5 (2), 87-93.

Application of large-scale sequencing to marker discovery in plants

Henry, Robert J., Edwards, Mark, Waters, Daniel L. E., Krishnan, S. Gopala, Bundock, Peter, Sexton, Timothy R., Masouleh, Ardashir K., Nock, Catherine J. and Pattemore, Julie (2012). Application of large-scale sequencing to marker discovery in plants. Journal of Biosciences, 37 (5), 829-841. doi: 10.1007/s12038-012-9253-z

SNP in starch biosynthesis genes associated with nutritional and functional properties of rice

Kharabian-Masouleh, Ardashir, Waters, Daniel L. E., Reinke, Russell F., Ward, Rachelle and Henry, Robert J. (2012). SNP in starch biosynthesis genes associated with nutritional and functional properties of rice. Scientific Reports, 2 (1) 557, 557.1-557.9. doi: 10.1038/srep00557

The infection processes of Sclerotinia sclerotiorum in basal stem tissue of a susceptible genotype of Helianthus annuus L.

Davar, Robab, Darvishzadeh, Reza, Majd, Ahmad, Masouleh, Ardashir Kharabian and Ghosta, Yobert (2012). The infection processes of Sclerotinia sclerotiorum in basal stem tissue of a susceptible genotype of Helianthus annuus L.. Notulae Botanicae Horti Agrobotanici Cluj-Napoca, 40 (1), 143-149. doi: 10.15835/nbha4017317

Discovery of polymorphisms in starch-related genes in rice germplasm by amplification of pooled DNA and deeply parallel sequencing

Kharabian-Masouleh, Ardashir, Waters, Daniel L. E., Reinke, Russell F. and Henry, Robert J. (2011). Discovery of polymorphisms in starch-related genes in rice germplasm by amplification of pooled DNA and deeply parallel sequencing. Plant Biotechnology Journal, 9 (9), 1074-1085. doi: 10.1111/j.1467-7652.2011.00629.x

In vitro propagation of Matthiola incana (Brassicaceae)-an ornamental plant

Kaviani, Behzad, Hesar, Afshin Ahmadi and Kharabian-Masouleh, Ardashir (2011). In vitro propagation of Matthiola incana (Brassicaceae)-an ornamental plant. Plant Omics, 4 (7), 435-440.

An efficient computational method for screening functional SNPs in plants

Kharabian, Ardashir (2010). An efficient computational method for screening functional SNPs in plants. Journal of Theoretical Biology, 265 (1), 55-62. doi: 10.1016/j.jtbi.2010.04.017

A high-throughput assay for rapid and simultaneous analysis of perfect markers for important quality and agronomic traits in rice using multiplexed MALDI-TOF mass spectrometry

Masouleh, Ardashir K., Waters, Daniel L. E., Reinke, Russel F. and Henry, Robert J. (2009). A high-throughput assay for rapid and simultaneous analysis of perfect markers for important quality and agronomic traits in rice using multiplexed MALDI-TOF mass spectrometry. Plant Biotechnology Journal, 7 (4), 355-363. doi: 10.1111/j.1467-7652.2009.00411.x

Electrophoretic profiles of gliadin subunits to evaluate genetic diversity of Triticum persicum Boiss. and Triticum pyramidale Percival

Kharabian, Ardashir, Jones, Andy and Kaviani, Behzad (2008). Electrophoretic profiles of gliadin subunits to evaluate genetic diversity of Triticum persicum Boiss. and Triticum pyramidale Percival. Plant Omics, 1 (1), 9-16.

Improvement of the nutritional value of soybean [Glycine max (L) Merr.] seed with alteration in protein subunits of glycinin (11S globulin) and β-conglycinin (7S globulin)

Kaviani, Behzad and Kharabian, Ardashir (2008). Improvement of the nutritional value of soybean [Glycine max (L) Merr.] seed with alteration in protein subunits of glycinin (11S globulin) and β-conglycinin (7S globulin). Turkish Journal of Biology, 32 (2), 91-97.

Characterization of some chromosomal aberrations in regenerated rice plants (Oryza sativa)

Kharabian, Ardashir and Darabi, Amirhossein (2005). Characterization of some chromosomal aberrations in regenerated rice plants (Oryza sativa). Plant Cell Tissue and Organ Culture, 83 (2), 161-168. doi: 10.1007/s11240-005-4886-3

Chromosome counts of some Veronica L. (Scrophulariaceae) species from Iran

Saeidi Mehrvarz, Shahryar and Kharabian, Ardeshir (2005). Chromosome counts of some Veronica L. (Scrophulariaceae) species from Iran. Turkish Journal of Botany, 29 (4), 263-267. doi: 10.22092/ijb.2017.111084.1166

Toward a molecular evaluation of grain quality using glutenin subunits in Triticum carthlicum

Masouleh, Ardashir Kharabian (2005). Toward a molecular evaluation of grain quality using glutenin subunits in Triticum carthlicum. African Journal of Biotechnology, 4 (4), 346-349.

Transcriptomics analysis for the detection of novel drought tolerance genes in Jojoba (Simmondsia Chinensis)

Al-Dossary, Othman, Kharabian, Ardashir, Al-Mssallem, Ibrahim, Furtado, Agnelo and Henry, Robert (2020). Transcriptomics analysis for the detection of novel drought tolerance genes in Jojoba (Simmondsia Chinensis). The Third International Tropical Agriculture Conference TropAg 2019 , Brisbane, QLD Australia, 11-13 November 2019. Basel, Switzerland: MDPI. doi: 10.3390/proceedings2019036135