Computational and Analytical Sciences

TitleComputational and Analytical Sciences
TypeScience Department
InstituteRothamsted Research
HeadChris Rawlings
Executive AssistantSally Murdoch

Outputs

Sort by: Date Title

A Co-Expression Network in Hexaploid Wheat Reveals Mostly Balanced Expression and Lack of Significant Gene Loss of Homeologous Meiotic Genes Upon Polyploidization

A - Papers appearing in refereed journals
Alabdullah AK., Borrill, P., Martin, AC., Ramirez-Gonzalez, RH., Hassani-Pak, K., Uauy, C., Shaw, P. and Moore, G. 2019. A Co-Expression Network in Hexaploid Wheat Reveals Mostly Balanced Expression and Lack of Significant Gene Loss of Homeologous Meiotic Genes Upon Polyploidization. Frontiers in Plant Science.

Mechanisms and Consequences of Partial Migration in Insects

A - Papers appearing in refereed journals
Menz, M., Reynolds, D. R., Gao, B., Hu, G., Chapman, J. and Wooton, K. 2019. Mechanisms and Consequences of Partial Migration in Insects. Frontiers in Ecology and Evolution.

PHI-base - the Pathogen–Host Interactions database

A - Papers appearing in refereed journals
Urban, M., Cuzick, A., Seager, J., Wood, V., Rutherford, K., De Silva, N., Venkatesh, S. Y, Martinez, M. C., Pedro, H., Yates, A. D., Hassani-Pak, K. and Hammond-Kosack, K. E. 2019. PHI-base - the Pathogen–Host Interactions database . Nucleic Acids Research. Database issue.

Genetic structure at national and regional scale in a long-distance dispersing pest organism, the bird cherry–oat aphid Rhopalosiphum padi

A - Papers appearing in refereed journals
Morales-Hojas, R., Gonzalez-Uriarte, A., Alvira-Iraizoz, F., Jenkins, T., Alderson, L. J., Kruger, T., Hall, M. J., Greenslade, A. F. C., Shortall, C. R. and Bell, J. R. 2019. Genetic structure at national and regional scale in a long-distance dispersing pest organism, the bird cherry–oat aphid Rhopalosiphum padi. bioRxiv.

Windborne long-distance migration of malaria mosquitoes in the Sahel

A - Papers appearing in refereed journals
Huestis, D. L., Dao, A., Diallo, M, Sanogo, L., Samake, D., Yaro, A. S., Ousman, Y., Linton, Y-M., Krishna, A., Veru, L., Krajacich, J., Faiman, R., Florio, J., Chapman, J. W., Reynolds, D. R., Weetman, D., Mitchell, R., Donnelly, M. J., Talamas, E., Chamorro, L., Strobach, E. and Lehmann, T. 2019. Windborne long-distance migration of malaria mosquitoes in the Sahel. Nature. 574 (7778), pp. 404-408.

Investigating vertical motion of small insects in the atmospheric boundary layer using millimetre-wavelength radar and Doppler LIDAR

Conference paper
Wainwright, C. E., Stepanian, P. M., Reynolds, D. R. and Reynolds, A. M. 2019. Investigating vertical motion of small insects in the atmospheric boundary layer using millimetre-wavelength radar and Doppler LIDAR. Institution of Engineering and Technology. doi:10.1049/joe.2019.0596

Estimation of the iron bioavailability in green vegetables using an in vitro digestion/Caco-2 cell model

A - Papers appearing in refereed journals
Rodriguez-Ramiro, I., Dellaquila, C., Ward, J. L., Neal, A. L., Bruggaber, S. F. A, Shewry, P. R. and Fairweather-Tail, S. 2019. Estimation of the iron bioavailability in green vegetables using an in vitro digestion/Caco-2 cell model. Food Chemistry. 301 (15 December), p. 125292.

Improving disease resistance in mungbean - A combined genetic and biotechnological approach

Conference poster
Bansal, A., Nekrasov, V., Rout, G. R., Rudd, J. J., Slavov, G., Chand, R. and Kanyuka, K. 2019. Improving disease resistance in mungbean - A combined genetic and biotechnological approach. BSPP 2019: Arms race: Evolution of plant pathogens and their hosts. Exhibition and Conference Centre, University of West England, Bristol, UK 02 Sep 2019

Transcriptome sequencing, molecular markers, and transcription factor discovery of Platanus acerifolia in the presence of Corythucha ciliata

A - Papers appearing in refereed journals
Li, F., Wu, C., Gao, M., Jiao, M., Qu, C., Gonzalez-Uriarte, A. and Luo, C. 2019. Transcriptome sequencing, molecular markers, and transcription factor discovery of Platanus acerifolia in the presence of Corythucha ciliata. Scientific Data. 6 (128).

Species matter when considering landscape effects on carabid distributions

A - Papers appearing in refereed journals
Jowett, K., Milne, A. E., Metcalfe, H., Hassall, K. L., Potts, S. G., Senapathi, D. and Storkey, J. 2019. Species matter when considering landscape effects on carabid distributions. Agriculture, Ecosystems & Environment. 285 (2019), p. 106631.

Journal of animal breeding and genetics

A - Papers appearing in refereed journals
Thompson, R. 2019. Journal of animal breeding and genetics . 136 (4), pp. 229-309.

Insights into Pasteurellaceae carriage dynamics in the nasal passages of healthy beef calves

A - Papers appearing in refereed journals
Lee, M. R. F., Bailey, M., Mead, A., Morales-Aza, B., Reynolds, R., Vipond, B., Finn, A., Eisler, M.C. and Thomas, A.C. 2019. Insights into Pasteurellaceae carriage dynamics in the nasal passages of healthy beef calves. Scientific Reports. 9 (11943), p. 11943.

Metabolomics analysis and biological investigation of three Malvaceae plants

A - Papers appearing in refereed journals
Abdelhafez, O. H., Othman, E. M., Fahim, J. R., Desoukey, S. Y., Pimentel-Elardo, S. M., Nodwell, J. R., Schirmeister, T., Tawfike, A. and Adbelmohsen, U. R. 2019. Metabolomics analysis and biological investigation of three Malvaceae plants. Phytochemical Analysis.

Gradients of Gluten Proteins and Free Amino Acids along the Longitudinal Axis of the Developing Caryopsis of Bread Wheat

A - Papers appearing in refereed journals
Shi, Z., Wang, Y., Wan, Y., Hassall, K. L., Jiang, D., Shewry, P. R. and Hawkesford, M. J. 2019. Gradients of Gluten Proteins and Free Amino Acids along the Longitudinal Axis of the Developing Caryopsis of Bread Wheat . Journal of Agricultural and Food Chemistry - JAFC. 67 (31), pp. 8706-8714.

Mass Seasonal Migrations of Hoverflies Provide Extensive Pollination and Crop Protection Services

A - Papers appearing in refereed journals
Wotton, K. R., Gao, B., Menz, M. H. M., Morris, R. K. A., Ball, S. G., Lim, K. S., Reynolds, D. R., Hu, G. and Chapman, J. W. 2019. Mass Seasonal Migrations of Hoverflies Provide Extensive Pollination and Crop Protection Services. Current Biology. 29 (13), pp. 2167-2173.e5.

Contrasting gene expression patterns in grain of high and low asparagine wheat genotypes in response to sulphur supply

A - Papers appearing in refereed journals
Curtis, T., Raffan, S., Wan, Y., King, R., Gonzalez-Uriarte, A. and Halford, N. G. 2019. Contrasting gene expression patterns in grain of high and low asparagine wheat genotypes in response to sulphur supply. BMC Genomics. 20, p. 628.

Use of the pre-assembled ribonucleoprotein (RNP) complex for gene editing of wheat and poplar

Conference poster
Sparks, C. A., Cerezo-Medina, S., Raffan, S. and Hahn, F. 2019. Use of the pre-assembled ribonucleoprotein (RNP) complex for gene editing of wheat and poplar. The 7th Plant Genomics and Gene Editing Congress. Rotterdam, The Netherlands 21 May 2019

Non-canonical fungal G-protein coupled receptors promote Fusarium head blight on wheat

A - Papers appearing in refereed journals
Dilks, T., Halsey, K., De Vos, R., Hammond-Kosack, K. E. and Brown, N. A. 2019. Non-canonical fungal G-protein coupled receptors promote Fusarium head blight on wheat. PLOS Pathogens. 15 (4), p. e1007666.

Environmental effects on flying migrants revealed by radar

A - Papers appearing in refereed journals
Becciu, P., Menz, M. H. M., Aubach, A., Cabrera-Cruz, S. A., Wainwright, C. E., Scacco, M., Ciach, M., Pettersson, L. B., Maggini, I., Arroyo., G. M., Buler, J. J., Reynolds, D. R. and Sapir, N. 2019. Environmental effects on flying migrants revealed by radar. Ecography. 42, pp. 1-14.

Mechanical spectroscopy of insect swarms

A - Papers appearing in refereed journals
Van der Vaart, K., Sinhuber, M., Reynolds, A. M. and Ouellette, N.T. 2019. Mechanical spectroscopy of insect swarms. Science Advances. 5 (7), p. eaaw9305.

Screening of locally available organic materials as substrates for production of Pochonia chlamydosporia in Kenya

A - Papers appearing in refereed journals
Luambano, N, Manzanilla-Lopez, R. H. and Powers, S. J. 2019. Screening of locally available organic materials as substrates for production of Pochonia chlamydosporia in Kenya. Biological Control. 133, pp. 18-25.

Basic LEUCINE ZIPPER TRANSCRIPTION FACTOR 67 transactivates DELAY OF GERMINATION 1 to establish primary seed dormancy in Arabidopsis

A - Papers appearing in refereed journals
Bryant, F. M., Hughes, D. J., Hassani-Pak, K. and Eastmond, P. J. 2019. Basic LEUCINE ZIPPER TRANSCRIPTION FACTOR 67 transactivates DELAY OF GERMINATION 1 to establish primary seed dormancy in Arabidopsis. The Plant Cell.

Multiple abiotic stress, nitrate availability and the growth of wheat

A - Papers appearing in refereed journals
Ge, Y., Hawkesford, M. J., Rosolem, C. A., Mooney, S. J., Ashton, R. W., Evans, J. and Whalley, W. R. 2019. Multiple abiotic stress, nitrate availability and the growth of wheat . Soil & Tillage Research. 191 (August), pp. 171-184.

Desert island papers-a life in variance parameter and quantitative genetic parameter estimation reviewed using sixteen papers

A - Papers appearing in refereed journals
Thompson, R. 2019. Desert island papers-a life in variance parameter and quantitative genetic parameter estimation reviewed using sixteen papers. Journal of Animal Breeding and Genetics. 136 (4), pp. 230-242.

Molecular quantification of Plasmodium parasite density from the blood retained in used RDTs

A - Papers appearing in refereed journals
Robinson, A., Busula, A., Muwanguzi, J., Powers, S. J., Masiga, D., Bousema, T., Takken, W., de Boer, J., Logan, J., Beshir, K. and Sutherland, C. 2019. Molecular quantification of Plasmodium parasite density from the blood retained in used RDTs. Scientific Reports. 9 (5107).

The contribution of spatial mass effects to plant diversity in arable fields

A - Papers appearing in refereed journals
Metcalfe, H., Hassall, K. L., Boinot, S. and Storkey, J. 2019. The contribution of spatial mass effects to plant diversity in arable fields . Journal of Applied Ecology.

On the origin of the tensile strength of insect swarms

A - Papers appearing in refereed journals
Reynolds, A. M. 2019. On the origin of the tensile strength of insect swarms. Physical Biology.

Effects of soybean oil supplements to diets of lactating dairy cows, on productive performance, and milk fat acids profile: a meta-analysis

A - Papers appearing in refereed journals
Mahdavi, A., Mahdavi, A., Darabighane, B., Mead, A. and Lee, M. R. F. 2019. Effects of soybean oil supplements to diets of lactating dairy cows, on productive performance, and milk fat acids profile: a meta-analysis. Italian Journal of Animal Science.

Harmonic radar tracking reveals random dispersal pattern of bumblebee (Bombus terrestris) queens after hibernation

A - Papers appearing in refereed journals
Makinson, J. C., Woodgate, J. L., Reynolds, A. M., Capaldi, E. A., Perry, C. J. and Chittka, L. 2019. Harmonic radar tracking reveals random dispersal pattern of bumblebee (Bombus terrestris) queens after hibernation. Scientific Reports. 9 (4651).

Phenylalkanoid glycosides (non-salicinoids) from wood chips of Salix triandra × dasyclados hybrid willow

A - Papers appearing in refereed journals
Noleto-Dias, C., Wu, Y., Bellisai, A., Macalpine, W. J., Beale, M. H. and Ward, J. L. 2019. Phenylalkanoid glycosides (non-salicinoids) from wood chips of Salix triandra × dasyclados hybrid willow. Molecules. 24 (6), p. 1152.

Bayesian analysis and prediction of hybrid performance

A - Papers appearing in refereed journals
Alves, F. C., Granato, I. S. C., Galli, g, Lyra, D. H., Fritsche-Neto, R. and De los Campos, G. 2019. Bayesian analysis and prediction of hybrid performance. Plant Methods. 15, p. 14.

Modeling copy number variation in the genomic prediction of maize hybrids

A - Papers appearing in refereed journals
Lyra, D. H., Galli, G., Alves, F. C., Granato, I. S. C., Vidotti, M. S., Sousa, M. B., Morosini, J. S., Crossa, J. and Fritsche-Neto, R. 2019. Modeling copy number variation in the genomic prediction of maize hybrids. Theoretical and Applied Genetics. 132, pp. 273-288.

Influence of Pickling Process on Allium cepa and Citrus limon Metabolome as Determined via Mass Spectrometry-Based Metabolomics

A - Papers appearing in refereed journals
Tawfike, A. F., Farag, M. A., Donia, M. S., Ehrlich, A. and Wessjohann, L. A. 2019. Influence of Pickling Process on Allium cepa and Citrus limon Metabolome as Determined via Mass Spectrometry-Based Metabolomics. Molecules. 24 (5), p. 928.

Yield responses of arable crops to liming - An evaluation of relationships between yields and soil pH from a long-term liming experiment

A - Papers appearing in refereed journals
Holland, J. E., White, P. J., Glendining, M. J., Goulding, K. W. T. and McGrath, S. P. 2019. Yield responses of arable crops to liming - An evaluation of relationships between yields and soil pH from a long-term liming experiment. European Journal of Agronomy. 105 (April), pp. 176-188.

Movement Ecology of Pest Helicoverpa: Implications for Ongoing Spread

A - Papers appearing in refereed journals
Jones, C. M., Parry, H., Tay, W. T., Reynolds, D. R. and Chapman, J. W. 2019. Movement Ecology of Pest Helicoverpa: Implications for Ongoing Spread. Annual Review of Entomology. 64, pp. 277-295.

Identification of a non-host semiochemical from tick-resistant donkeys (Equus asinus) against Amblyomma sculptum ticks

A - Papers appearing in refereed journals
Ferreira, L. L., Sarria, A. L. F., De Olivera Filho, J. G., De Olivera de Silva, F., Powers, S. J., Caulfield, J. C., Pickett, J. A., Birkett, M. A. and Borges, L. M. F. 2019. Identification of a non-host semiochemical from tick-resistant donkeys (Equus asinus) against Amblyomma sculptum ticks. Ticks and Tick-Borne Diseases. 10 (3), pp. 621-627.

Application of metabolomics and molecular networking in investigating the chemical profile and antitrypanosomal activity of British bluebells ( Hyacinthoides non-scripta )

A - Papers appearing in refereed journals
Raheem, D., Tawfike, A. F, Abdulmohsen, U., Edrada-Ebel, R. and Fitzsimmons-Thoss, V. 2019. Application of metabolomics and molecular networking in investigating the chemical profile and antitrypanosomal activity of British bluebells ( Hyacinthoides non-scripta ). Scientific Reports. 9 (1), p. 2547.

ACE: Application for Conditional probability Elicitation

J - Computer programs
Hassall, K. L. 2019. ACE: Application for Conditional probability Elicitation. GitHub Rothamsted Research. doi:10.5281/zenodo.2563239

A Possible Connection Between Plant Longevity and the Absence of Protein Fibrillation: Basis for Identifying Aggregation Inhibitors in Plants

A - Papers appearing in refereed journals
Mohammed-Beigi, H., Kjaer, L., Eskandari, H., Aliakbari, F., Christiansen, G., Ruvo, G., Ward, J. L. and Otzen, D.E. 2019. A Possible Connection Between Plant Longevity and the Absence of Protein Fibrillation: Basis for Identifying Aggregation Inhibitors in Plants. Frontiers in Plant Science. 10, p. 148.

Oleuropein derivatives from olive fruit extracts reduce α-synuclein fibrillation and oligomer toxicity

A - Papers appearing in refereed journals
Mohammed-Beigi, H., Aliakbari, F., Sahin, C., Lomax, C., Tawfike, A., Shafer, N.P., Amiri-Nowdijeh, A., Eskandari, E., Moller, I.M., Hosseini-Mazinani, M., Christiansen, G., Ward, J. L., Morshedi, D. and Otzen, D.E 2019. Oleuropein derivatives from olive fruit extracts reduce α-synuclein fibrillation and oligomer toxicity. Journal of Biological Chemistry. 294, pp. 4215-4232.