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Microbial drivers of root plasticity (2025)
Journal Article
Dini‐Andreote, F., Wells, D. M., Atkinson, J. A., Atkinson, B. S., Finkel, O. M., & Castrillo, G. (2025). Microbial drivers of root plasticity. New Phytologist, https://doi.org/10.1111/nph.70371

Soils are highly heterogeneous and dynamic systems, experiencing a constant flow of plant root exudates and moisture fluctuations that affect nutrient distribution, soil physicochemical properties, and microbial metabolisms. Plant roots adjust their... Read More about Microbial drivers of root plasticity.

High-fidelity wheat plant reconstruction using 3D Gaussian splatting and neural radiance fields (2025)
Journal Article
Pound, M. P., Stuart, L. A., Wells, D. M., Atkinson, J. A., Castle-Green, S., & Walker, J. (2025). High-fidelity wheat plant reconstruction using 3D Gaussian splatting and neural radiance fields. GigaScience, 14, Article giaf022. https://doi.org/10.1093/gigascience/giaf022

Background: The reconstruction of 3-dimensional (3D) plant models can offer advantages over traditional 2-dimensional approaches by more accurately capturing the complex structure and characteristics of different crops. Conventional 3D reconstruction... Read More about High-fidelity wheat plant reconstruction using 3D Gaussian splatting and neural radiance fields.

Integrating phenotyping and modelling approaches StomaGAN: improving image-based analysis of stomata through generative adversarial networks (2025)
Journal Article
Gibbs, J. A., & Gibbs, A. J. (2025). Integrating phenotyping and modelling approaches StomaGAN: improving image-based analysis of stomata through generative adversarial networks. in silico Plants, 7(1), Article diaf002. https://doi.org/10.1093/insilicoplants/diaf002

Stomata regulate gas exchange between plants and the atmosphere, but analysing their morphology is challenging due to anatomical variability and artifacts during image acquisition. Deep learning (DL) can address these challenges but often requires la... Read More about Integrating phenotyping and modelling approaches StomaGAN: improving image-based analysis of stomata through generative adversarial networks.

Supporting data for "High-fidelity Wheat Plant Reconstruction using 3D Gaussian Splatting and Neural Radiance Fields" (2025)
Data
(2025). Supporting data for "High-fidelity Wheat Plant Reconstruction using 3D Gaussian Splatting and Neural Radiance Fields". [Data]. https://doi.org/10.5524/102661

The reconstruction of 3D plant models can offer advantages over traditional 2D approaches by more accurately capturing the complex structure and characteristics of different crops. Conventional 3D reconstruction techniques often produce sparse or noi... Read More about Supporting data for "High-fidelity Wheat Plant Reconstruction using 3D Gaussian Splatting and Neural Radiance Fields".

ABA-auxin cascade regulates crop root angle in response to drought (2025)
Journal Article
Xiong, Y., Song, X., Mehra, P., Yu, S., Li, Q., Tashenmaimaiti, D., Bennett, M., Kong, X., Bhosale, R., & Huang, G. (2025). ABA-auxin cascade regulates crop root angle in response to drought. Current Biology, 35(3), 542-553.e4. https://doi.org/10.1016/j.cub.2024.12.003

Enhancing drought resistance through the manipulation of root system architecture (RSA) in crops represents a crucial strategy for addressing food insecurity challenges. Abscisic acid (ABA) plays important roles in drought tolerance; yet, its molecul... Read More about ABA-auxin cascade regulates crop root angle in response to drought.

Root metaxylem area influences drought tolerance and transpiration in pearl millet in a soil texture dependent manner (2024)
Preprint / Working Paper
Affortit, P., Faye, A., Jones, D. H., Benson, E., Sine, B., Burridge, J., Ndoye, M. S., Barry, L., Moukouanga, D., Barnard, S., Bhosale, R., Pridmore, T., Gantet, P., Vadez, V., Cubry, P., Kane, N., Bennett, M., Atkinson, J. A., Laplaze, L., Wells, D. M., & Grondin, A. (2024). Root metaxylem area influences drought tolerance and transpiration in pearl millet in a soil texture dependent manner

Pearl millet is a key cereal for food security in drylands but its yield is strongly impacted by drought. We investigated how root anatomical traits contribute to mitigating the effects of vegetative drought stress in pearl millet.

We examined ass... Read More about Root metaxylem area influences drought tolerance and transpiration in pearl millet in a soil texture dependent manner.

A novel root hair mutant, srh1, affects root hair elongation and reactive oxygen species levels in wheat (2024)
Journal Article
Tsang, I., Thomelin, P., Ober, E. S., Rawsthorne, S., Atkinson, J. A., Wells, D. M., Percival-Alwyn, L., Leigh, F. J., & Cockram, J. (2024). A novel root hair mutant, srh1, affects root hair elongation and reactive oxygen species levels in wheat. Frontiers in Plant Science, 15, Article 1490502. https://doi.org/10.3389/fpls.2024.1490502

Background: Root hairs are single-celled projections on root surfaces, critical for water and nutrient uptake. Here, we describe the first short root hair mutant in wheat (Triticum aestivum L.), identified in a mutagenized population and termed here... Read More about A novel root hair mutant, srh1, affects root hair elongation and reactive oxygen species levels in wheat.

Kinetochore and ionomic adaptation to whole-genome duplication in Cochlearia shows evolutionary convergence in three autopolyploids (2024)
Journal Article
Bray, S. M., Hämälä, T., Zhou, M., Busoms, S., Fischer, S., Desjardins, S. D., Mandáková, T., Moore, C., Mathers, T. C., Cowan, L., Monnahan, P., Koch, J., Wolf, E. M., Lysak, M. A., Kolar, F., Higgins, J. D., Koch, M. A., & Yant, L. (2024). Kinetochore and ionomic adaptation to whole-genome duplication in Cochlearia shows evolutionary convergence in three autopolyploids. Cell Reports, 43(8), Article 114576. https://doi.org/10.1016/j.celrep.2024.114576

Whole-genome duplication (WGD) occurs in all kingdoms and impacts speciation, domestication, and cancer outcome. However, doubled DNA management can be challenging for nascent polyploids. The study of within-species polyploidy (autopolyploidy) permit... Read More about Kinetochore and ionomic adaptation to whole-genome duplication in Cochlearia shows evolutionary convergence in three autopolyploids.

Prebiotic galactooligosaccharide feed modifies the chicken gut microbiota to efficiently clear Salmonella (2024)
Journal Article
Richards, P. J., Almutrafy, A., Liang, L., Flaujac Lafontaine, G. M., King, E., Fish, N. M., Connerton, A. J., Connerton, P. L., & Connerton, I. F. (2024). Prebiotic galactooligosaccharide feed modifies the chicken gut microbiota to efficiently clear Salmonella. mSystems, 9(8), Article e00754-24. https://doi.org/10.1128/msystems.00754-24

Chicken meat is contaminated with Salmonella from the gut of infected chickens during slaughter. Eradication of Salmonella from broiler chickens through hygiene measures and/or vaccination is not cost-effective; complementary approaches are required.... Read More about Prebiotic galactooligosaccharide feed modifies the chicken gut microbiota to efficiently clear Salmonella.

Root Hairs: An under-explored target for sustainable cereal crop production (2024)
Journal Article
Tsang, I., Atkinson, J. A., Rawsthorne, S., Cockram, J., & Leigh, F. (2024). Root Hairs: An under-explored target for sustainable cereal crop production. Journal of Experimental Botany, 75(18), 5484–5500. https://doi.org/10.1093/jxb/erae275

To meet the demands of a rising human population, plant breeders will need to develop improved crop varieties that maximize yield in the face of increasing pressure on crop production. Historically, the optimization of crop root architecture has repr... Read More about Root Hairs: An under-explored target for sustainable cereal crop production.

The proliferation of derivative and redundant studies in endocrinology due to the application of Mendelian Randomisation and other methods to open databases. (2024)
Journal Article
Tobias, J. H., Samaras, K., Ivell, R., Davies, T. F., Sjöholm, Å., Day-Haynes, I., & Holly, J. M. (2024). The proliferation of derivative and redundant studies in endocrinology due to the application of Mendelian Randomisation and other methods to open databases. Frontiers in Endocrinology, 15, Article 1400583. https://doi.org/10.3389/fendo.2024.1400583

Integrating cryo-OrbiSIMS with computational modelling and metadynamics simulations enhances RNA structure prediction at atomic resolution (2024)
Journal Article
Ward, S., Childs, A., Staley, C., Waugh, C., Watts, J. A., Kotowska, A. M., Bhosale, R., & Borkar, A. N. (2024). Integrating cryo-OrbiSIMS with computational modelling and metadynamics simulations enhances RNA structure prediction at atomic resolution. Nature Communications, 15(1), Article 4367. https://doi.org/10.1038/s41467-024-48694-3

The 3D architecture of RNAs governs their molecular interactions, chemical reactions, and biological functions. However, a large number of RNAs and their protein complexes remain poorly understood due to the limitations of conventional structural bio... Read More about Integrating cryo-OrbiSIMS with computational modelling and metadynamics simulations enhances RNA structure prediction at atomic resolution.

The first intron of ARF7 is required for expression in root tips (2024)
Journal Article
Han, J., Welch, T., Voß, U., Vernoux, T., Bhosale, R., & Bishopp, A. (2024). The first intron of ARF7 is required for expression in root tips. iScience, 27(6), Article 109936. https://doi.org/10.1016/j.isci.2024.109936

Auxin regulates plant growth and development through the transcription factors of the AUXIN RESPONSE FACTOR (ARF) gene family. ARF7 is one of five activators that bind DNA and elicit downstream transcriptional responses. In roots, ARF7 regulates grow... Read More about The first intron of ARF7 is required for expression in root tips.

Application of deep learning for the analysis of stomata: a review of current methods and future directions (2024)
Journal Article
Gibbs, J. A., & Burgess, A. J. (2024). Application of deep learning for the analysis of stomata: a review of current methods and future directions. Journal of Experimental Botany, 75(21), 6704-6718. https://doi.org/10.1093/jxb/erae207

Plant physiology and metabolism relies on the function of stomata, structures on the surface of above ground organs, which facilitate the exchange of gases with the atmosphere. The morphology of the guard cells and corresponding pore which make up th... Read More about Application of deep learning for the analysis of stomata: a review of current methods and future directions.

The auxin efflux carrier PIN1a regulates vascular patterning in cereal roots (2024)
Journal Article
Fusi, R., Milner, S. G., Rosignoli, S., Bovina, R., De Jesus Vieira Teixeira, C., Lou, H., Atkinson, B. S., Borkar, A. N., York, L. M., Jones, D. H., Sturrock, C. J., Stein, N., Mascher, M., Tuberosa, R., O'Connor, D., Bennett, M. J., Bishopp, A., Salvi, S., & Bhosale, R. (2024). The auxin efflux carrier PIN1a regulates vascular patterning in cereal roots. New Phytologist, 244(1), 104-115. https://doi.org/10.1111/nph.19777

Barley (Hordeum vulgare) is an important global cereal crop and a model in genetic studies. Despite advances in characterising barley genomic resources, few mutant studies have identified genes controlling root architecture and anatomy, which plays a... Read More about The auxin efflux carrier PIN1a regulates vascular patterning in cereal roots.

Interplay between developmental cues and rhizosphere signals from mycorrhizal fungi shape root anatomy, impacting crop productivity (2024)
Journal Article
Grondin, A., Li, M., Bhosale, R., Sawers, R., & Schneider, H. M. (2024). Interplay between developmental cues and rhizosphere signals from mycorrhizal fungi shape root anatomy, impacting crop productivity. Plant and Soil, 503, 587-594. https://doi.org/10.1007/s11104-024-06611-z

Background: The rhizosphere is the interface between roots and the soil and the site of nutrient and water uptake for plant growth. Root anatomy and the physical, chemical, and biological components of the rhizosphere interact to influence plant grow... Read More about Interplay between developmental cues and rhizosphere signals from mycorrhizal fungi shape root anatomy, impacting crop productivity.

Ethylene regulates auxin-mediated root gravitropic machinery and controls root angle in cereal crops (2024)
Journal Article
Kong, X., Xiong, Y., Song, X., Wadey, S., Yu, S., Rao, J., Lale, A., Lombardi, M., Fusi, R., Bhosale, R., & Huang, G. (2024). Ethylene regulates auxin-mediated root gravitropic machinery and controls root angle in cereal crops. Plant Physiology, 195(3), 1969-1980. https://doi.org/10.1093/plphys/kiae134

Root angle is a critical factor in optimizing the acquisition of essential resources from different soil depths. The regulation of root angle relies on the auxin-mediated root gravitropism machinery. While the influence of ethylene on auxin levels is... Read More about Ethylene regulates auxin-mediated root gravitropic machinery and controls root angle in cereal crops.

A genomic toolkit for winged bean Psophocarpus tetragonolobus (2024)
Journal Article
Ho, W. K., Tanzi, A. S., Sang, F., Tsoutsoura, N., Shah, N., Moore, C., Bhosale, R., Wright, V., Massawe, F., & Mayes, S. (2024). A genomic toolkit for winged bean Psophocarpus tetragonolobus. Nature Communications, 15(1), Article 1901. https://doi.org/10.1038/s41467-024-45048-x

A sustainable supply of plant protein is critical for future generations and needs to be achieved while reducing green house gas emissions from agriculture and increasing agricultural resilience in the face of climate volatility. Agricultural diversi... Read More about A genomic toolkit for winged bean Psophocarpus tetragonolobus.