All Outputs (38)

Emergent SARS-CoV-2 variants: comparative replication dynamics and high sensitivity to thapsigargin (2021)
Journal Article
Al-Beltagi, S., Goulding, L. V., Chang, D. K., Mellits, K. H., Hayes, C. J., Gershkovich, P., …Chang, K. (2021). Emergent SARS-CoV-2 variants: comparative replication dynamics and high sensitivity to thapsigargin. Virulence, 12(1), 2946-2956. https://doi.org/10.1080/21505594.2021.2006960

The struggle to control the COVID-19 pandemic is made challenging by the emergence of virulent SARS-CoV-2 variants. To gain insight into their replication dynamics, emergent Alpha (A), Beta (B) and Delta (D) SARS-CoV-2 variants were assessed for thei... Read More about Emergent SARS-CoV-2 variants: comparative replication dynamics and high sensitivity to thapsigargin.

Significance of root hairs in developing stress-resilient plants for sustainable crop production (2021)
Journal Article
Kohli, P. S., Maurya, K., Thakur, J. K., Bhosale, R., & Giri, J. (2022). Significance of root hairs in developing stress-resilient plants for sustainable crop production. Plant, Cell and Environment, 45(3), 677-694. https://doi.org/10.1111/pce.14237

Root hairs represent a beneficial agronomic trait to potentially reduce fertilizer and irrigation inputs. Over the past decades, research in the plant model Arabidopsis thaliana has provided insights into root hair development, the underlying genetic... Read More about Significance of root hairs in developing stress-resilient plants for sustainable crop production.

A Deep Learning Method for Fully Automatic Stomatal Morphometry and Maximal Conductance Estimation (2021)
Journal Article
Gibbs, J. A., Mcausland, L., Robles-Zazueta, C. A., Murchie, E. H., & Burgess, A. J. (2021). A Deep Learning Method for Fully Automatic Stomatal Morphometry and Maximal Conductance Estimation. Frontiers in Plant Science, 12, Article 780180. https://doi.org/10.3389/fpls.2021.780180

Stomata are integral to plant performance, enabling the exchange of gases between the atmosphere and the plant. The anatomy of stomata influences conductance properties with the maximal conductance rate, gsmax, calculated from density and size. Howev... Read More about A Deep Learning Method for Fully Automatic Stomatal Morphometry and Maximal Conductance Estimation.

Temporal refinement of 3D CNN semantic segmentations on 4D time-series of undersampled tomograms using hidden Markov models (2021)
Journal Article
Bellos, D., Basham, M., Pridmore, T., & French, A. P. (2021). Temporal refinement of 3D CNN semantic segmentations on 4D time-series of undersampled tomograms using hidden Markov models. Scientific Reports, 11(1), Article 23279. https://doi.org/10.1038/s41598-021-02466-x

Recently, several convolutional neural networks have been proposed not only for 2D images, but also for 3D and 4D volume segmentation. Nevertheless, due to the large data size of the latter, acquiring a sufficient amount of training annotations is mu... Read More about Temporal refinement of 3D CNN semantic segmentations on 4D time-series of undersampled tomograms using hidden Markov models.

Phosphorylated B6 vitamer deficiency in SALT OVERLY SENSITIVE 4 mutants compromises shoot and root development (2021)
Journal Article
Gorelova, V., Colinas, M., Dell’Aglio, E., Flis, P., Salt, D. E., & Fitzpatrick, T. B. (2022). Phosphorylated B6 vitamer deficiency in SALT OVERLY SENSITIVE 4 mutants compromises shoot and root development. Plant Physiology, 188(1), 220-240. https://doi.org/10.1093/plphys/kiab475

Stunted growth in saline conditions is a signature phenotype of the Arabidopsis SALT OVERLY SENSITIVE mutants (sos1-5) affected in pathways regulating the salt stress response. One of the mutants isolated, sos4, encodes a kinase that phosphorylates p... Read More about Phosphorylated B6 vitamer deficiency in SALT OVERLY SENSITIVE 4 mutants compromises shoot and root development.

Future roots for future soils (2021)
Journal Article
Lynch, J. P., Mooney, S. J., Strock, C. F., & Schneider, H. M. (2022). Future roots for future soils. Plant, Cell and Environment, 45(3), 620-636. https://doi.org/10.1111/pce.14213

Mechanical impedance constrains root growth in most soils. Crop cultivation changed the impedance characteristics of native soils, through topsoil erosion, loss of organic matter, disruption of soil structure and loss of biopores. Increasing adoption... Read More about Future roots for future soils.

Dual expression and anatomy lines allow simultaneous visualization of gene expression and anatomy (2021)
Journal Article
Kümpers, B. M. C., Han, J., Vaughan-Hirsch, J., Redman, N., Ware, A., Atkinson, J. A., …Bishopp, A. (2022). Dual expression and anatomy lines allow simultaneous visualization of gene expression and anatomy. Plant Physiology, 188(1), 56-69. https://doi.org/10.1093/plphys/kiab503

Studying the developmental genetics of plant organs, requires following gene expression in specific tissues. To facilitate this, we have developed the Dual Expression Anatomy Lines (DEAL), which incorporate a red plasma membrane marker alongside a fl... Read More about Dual expression and anatomy lines allow simultaneous visualization of gene expression and anatomy.

Schengen-pathway controls spatially separated and chemically distinct lignin deposition in the endodermis (2021)
Working Paper
Reyt, G., Ramakrishna, P., Salas-Gonzalez, I., Fujita, S., Love, A., Tiemessen, D., …Salt, D. E. Schengen-pathway controls spatially separated and chemically distinct lignin deposition in the endodermis

Lignin is a complex polymer precisely deposited in the cell wall of specialised plant cells, where it provides essential cellular functions. Plants coordinate timing, location, abundance and composition of lignin deposition in response to endogenous... Read More about Schengen-pathway controls spatially separated and chemically distinct lignin deposition in the endodermis.

Effect of AAV-mediated overexpression of ATF5 and downstream targets of an integrated stress response in murine skeletal muscle (2021)
Journal Article
Brearley-Sholto, M. C., Loczenski-Brown, D. M., Jones, S., Daniel, Z. C., Ebling, F. J., Parr, T., & Brameld, J. M. (2021). Effect of AAV-mediated overexpression of ATF5 and downstream targets of an integrated stress response in murine skeletal muscle. Scientific Reports, 11(1), 1-13. https://doi.org/10.1038/s41598-021-99432-4

We previously reported that growth promoter-induced skeletal muscle hypertrophy co-ordinately upregulated expression of genes associated with an integrated stress response (ISR), as well as potential ISR regulators. We therefore used Adeno-Associated... Read More about Effect of AAV-mediated overexpression of ATF5 and downstream targets of an integrated stress response in murine skeletal muscle.

Maternal one-carbon metabolism during the periconceptional period and human foetal brain growth: A systematic review (2021)
Journal Article
Rubini, E., Baijens, I. M., Horánszky, A., Schoenmakers, S., Sinclair, K. D., Zana, M., …Rousian, M. (2021). Maternal one-carbon metabolism during the periconceptional period and human foetal brain growth: A systematic review. Genes, 12(10), Article 1634. https://doi.org/10.3390/genes12101634

The maternal environment during the periconceptional period influences foetal growth and development, in part, via epigenetic mechanisms moderated by one-carbon metabolic pathways. During embryonic development, one-carbon metabolism is involved in br... Read More about Maternal one-carbon metabolism during the periconceptional period and human foetal brain growth: A systematic review.

Shifts in Soil Structure, Biological, and Functional Diversity Under Long-Term Carbon Deprivation (2021)
Journal Article
George, P. B., Fidler, D. B., Van Nostrand, J. D., Atkinson, J. A., Mooney, S. J., Creer, S., …Jones, D. L. (2021). Shifts in Soil Structure, Biological, and Functional Diversity Under Long-Term Carbon Deprivation. Frontiers in Microbiology, 12, 1-16. https://doi.org/10.3389/fmicb.2021.735022

Soil organic matter is composed of a variety of carbon (C) forms. However, not all forms are equally accessible to soil microorganisms. Deprivation of C inputs will cause changes in the physical and microbial community structures of soils; yet the tr... Read More about Shifts in Soil Structure, Biological, and Functional Diversity Under Long-Term Carbon Deprivation.

Parallel adaptation in autopolyploid Arabidopsis arenosa is dominated by repeated recruitment of shared alleles (2021)
Journal Article
Konečná, V., Bray, S., Vlček, J., Bohutínská, M., Požárová, D., Choudhury, R. R., …Kolář, F. (2021). Parallel adaptation in autopolyploid Arabidopsis arenosa is dominated by repeated recruitment of shared alleles. Nature Communications, 12(1), Article 4979. https://doi.org/10.1038/s41467-021-25256-5

Relative contributions of pre-existing vs de novo genomic variation to adaptation are poorly understood, especially in polyploid organisms. We assess this in high resolution using autotetraploid Arabidopsis arenosa, which repeatedly adapted to toxic... Read More about Parallel adaptation in autopolyploid Arabidopsis arenosa is dominated by repeated recruitment of shared alleles.

Microbial Metal Resistance within Structured Environments Is Inversely Related to Environmental Pore Size (2021)
Journal Article
Harvey, H. J., Mitzakoff, A. M., Wildman, R. D., Mooney, S. J., & Avery, S. V. (2021). Microbial Metal Resistance within Structured Environments Is Inversely Related to Environmental Pore Size. Applied and Environmental Microbiology, 87(20), Article e01005-21. https://doi.org/10.1128/AEM.01005-21

The physical environments in which microorganisms naturally reside rarely have homogeneous structure, and changes in their porous architecture may have effects on microbial activities that are not typically captured in conventional laboratory studies... Read More about Microbial Metal Resistance within Structured Environments Is Inversely Related to Environmental Pore Size.

Non-invasive hydrodynamic imaging in plant roots at cellular resolution (2021)
Journal Article
Pascut, F. C., Couvreur, V., Dietrich, D., Leftley, N., Reyt, G., Boursiac, Y., …Webb, K. F. (2021). Non-invasive hydrodynamic imaging in plant roots at cellular resolution. Nature Communications, 12(1), 1-7. https://doi.org/10.1038/s41467-021-24913-z

A key impediment to studying water-related mechanisms in plants is the inability to non-invasively image water fluxes in cells at high temporal and spatial resolution. Here, we report that Raman microspectroscopy, complemented by hydrodynamic modelli... Read More about Non-invasive hydrodynamic imaging in plant roots at cellular resolution.

Impact of cold plasma on the biomolecules and organoleptic properties of foods: A review (2021)
Journal Article
Warne, G. R., Williams, P. M., Quoc Pho, H., Nghiep Tran, N., Hessel, V., & Fisk, I. D. (2021). Impact of cold plasma on the biomolecules and organoleptic properties of foods: A review. Journal of Food Science, 86(9), 3762-3777. https://doi.org/10.1111/1750-3841.15856

Cold plasma is formed by the nonthermal ionisation of gas into free electrons, ions, reactive atomic and molecular species, and UV radiation. This cold plasma can be used to alter the surface of solid and liquid foods, and it offers multiple advantag... Read More about Impact of cold plasma on the biomolecules and organoleptic properties of foods: A review.

Bacteriophage therapy to reduce colonization of campylobacter jejuni in broiler chickens before slaughter (2021)
Journal Article
D’angelantonio, D., Scattolini, S., Boni, A., Neri, D., Di Serafino, G., Connerton, P., …Aprea, G. (2021). Bacteriophage therapy to reduce colonization of campylobacter jejuni in broiler chickens before slaughter. Viruses, 13(8), Article 1428. https://doi.org/10.3390/v13081428

Campylobacteriosis is the most commonly reported gastrointestinal disease in humans. Campybacter jejuni is the main cause of the infection, and bacterial colonization in broiler chickens is widespread and difficult to prevent, leading to high risk of... Read More about Bacteriophage therapy to reduce colonization of campylobacter jejuni in broiler chickens before slaughter.

Exploring the multisensory perception of terpene alcohol and sesquiterpene rich hop extracts in lager style beer (2021)
Journal Article
Dietz, C., Cook, D., Wilson, C., Oliveira, P., & Ford, R. (2021). Exploring the multisensory perception of terpene alcohol and sesquiterpene rich hop extracts in lager style beer. Food Research International, 148, Article 110598. https://doi.org/10.1016/j.foodres.2021.110598

Understanding the contribution of hop essential oil to the multisensory profile of beer is known to be challenging because of its chemical and sensory complexity. Limited research has been conducted investigating hop-derived volatiles' role in the mo... Read More about Exploring the multisensory perception of terpene alcohol and sesquiterpene rich hop extracts in lager style beer.

Review: More effective linkages between science and policy are needed to minimize the negative environmental impacts of livestock production (2021)
Journal Article
Gill, M., Garnsworthy, P., & Wilkinson, J. M. (2021). Review: More effective linkages between science and policy are needed to minimize the negative environmental impacts of livestock production. Animal, 15(Supplement 1), Article 100291. https://doi.org/10.1016/j.animal.2021.100291

Animals form an integral part of our planetary ecosystem but balance is critical to effective ecosystem functioning as demand for livestock products has increased, greater numbers of domesticated livestock have created an imbalance and hence had a ne... Read More about Review: More effective linkages between science and policy are needed to minimize the negative environmental impacts of livestock production.

The association between foot temperature and hoof lesions in sheep (2021)
Journal Article
Eyre, L., Huggett, Z. J., Slinger, K. R., Siettou, C., & Bell, M. J. (2021). The association between foot temperature and hoof lesions in sheep. Livestock Science, 251, Article 104606. https://doi.org/10.1016/j.livsci.2021.104606

Lameness, predominantly caused by footrot and interdigital dermatitis, is a common issue in sheep flocks with negative consequences for animal welfare and productivity. Simple and cheap methods to prevent and monitor lameness are desirable to decreas... Read More about The association between foot temperature and hoof lesions in sheep.

Root angle in maize influences nitrogen capture and is regulated by calcineurin B-like protein (CBL)-interacting serine/threonine-protein kinase 15 (ZmCIPK15) (2021)
Journal Article
Schneider, H. M., Lor, V. S. N., Hanlon, M. T., Perkins, A., Kaeppler, S. M., Borkar, A. N., …Lynch, J. P. (2022). Root angle in maize influences nitrogen capture and is regulated by calcineurin B-like protein (CBL)-interacting serine/threonine-protein kinase 15 (ZmCIPK15). Plant, Cell and Environment, 45(3), 837-853. https://doi.org/10.1111/pce.14135

Crops with reduced nutrient and water requirements are urgently needed in global agriculture. Root growth angle plays an important role in nutrient and water acquisition. A maize diversity panel of 481 genotypes was screened for variation in root ang... Read More about Root angle in maize influences nitrogen capture and is regulated by calcineurin B-like protein (CBL)-interacting serine/threonine-protein kinase 15 (ZmCIPK15).