BMC Genomics

Journal

TitleBMC Genomics
ISSN1471-2164
PublisherBiomed Central Ltd

Outputs

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A Near-Chromosome Level Genome Assembly of the European Hoverfly, Sphaerophoria Rueppellii (Diptera: Syrphidae), and a Comparative Analysis of Insecticide Resistance-Related Gene Families in Hemipteran Crop Pests and Pollinators

A - Papers appearing in refereed journals
Bailey, E., Field, L. M., Rawlings, C. J., King, R., Mohareb, F., Hassani-Pak, K., Hughes, D. J., Williamson, M. S., Ganko, E., Buer, B. and Nauen, R. 2022. A Near-Chromosome Level Genome Assembly of the European Hoverfly, Sphaerophoria Rueppellii (Diptera: Syrphidae), and a Comparative Analysis of Insecticide Resistance-Related Gene Families in Hemipteran Crop Pests and Pollinators. BMC Genomics. 23 (1), p. 198. https://doi.org/10.1186/s12864-022-08436-5

A scaffold-level genome assembly of a minute pirate bug, Orius laevigatus, and a comparative analysis of insecticide resistance-related gene families with hemipteran crop pests

A - Papers appearing in refereed journals
Bailey, E., Field, L. M., Rawlings, C. J., King, R., Mahareb, F., Hassani-Pak, K., Hughes, D. J., Williamson, M. S., Ganko, E., Buer, B. and Nauen, R. 2022. A scaffold-level genome assembly of a minute pirate bug, Orius laevigatus, and a comparative analysis of insecticide resistance-related gene families with hemipteran crop pests. BMC Genomics. 23, p. 45. https://doi.org/10.1186/s12864-021-08249-y

Genome-wide identification of sucrose nonfermenting-1-related protein kinase (SnRK) genes in barley and RNA-seq analyses of their expression in response to ABA treatment

A - Papers appearing in refereed journals
Chen, Z., Zhou, L., Jiang, P., Lu, R., Halford, N. G. and Liu, C. 2021. Genome-wide identification of sucrose nonfermenting-1-related protein kinase (SnRK) genes in barley and RNA-seq analyses of their expression in response to ABA treatment . BMC Genomics. 22 (article), p. 300. https://doi.org/10.1186/s12864-021-07601-6

Host plant adaptation in the polyphagous whitefly, Trialeurodes vaporariorum, is associated with transcriptional plasticity and altered sensitivity to insecticides

A - Papers appearing in refereed journals
Pym, A., Singh, K. S., Nordgren, A., Davies, T. G. E., Zimmer, C. T., Elias, J., Slater, R. and Bass, C. G. 2019. Host plant adaptation in the polyphagous whitefly, Trialeurodes vaporariorum, is associated with transcriptional plasticity and altered sensitivity to insecticides. BMC Genomics. 20 (996). https://doi.org/10.1186/s12864-019-6397-3

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. https://doi.org/10.1186/s12864-019-5991-8

Inter-genome comparison of the Quorn fungus Fusarium venenatum and the closely related plant infecting pathogen Fusarium graminearum

A - Papers appearing in refereed journals
King, R., Brown, N. A., Urban, M. and Hammond-Kosack, K. E. 2018. Inter-genome comparison of the Quorn fungus Fusarium venenatum and the closely related plant infecting pathogen Fusarium graminearum. BMC Genomics. 19, p. 269. https://doi.org/10.1186/s12864-018-4612-2

The genome of the biting midge Culicoides sonorensis and gene expression analyses of vector competence for Bluetongue virus

A - Papers appearing in refereed journals
Morales-Hojas, R., Hinsley, M., Armean, I .M., Silk, R., Harrup, L. E., Gonzalez-Uriarte, A., Veronesi, E., Campbell, L., Nayduch, D., Saski, C., Tabachnick, W. J., Kersey, P., Carpenter, S. and Fife, M. 2018. The genome of the biting midge Culicoides sonorensis and gene expression analyses of vector competence for Bluetongue virus. BMC Genomics. 19, p. 624. https://doi.org/10.1101/249482

Comparative genomics to explore phylogenetic relationship, cryptic sexual potential and host specificity of Rhynchosporium species on grasses

A - Papers appearing in refereed journals
Penselin, D., Munsterkotter, M., Kirsten, S., Felder, M., Taudien, S., Plazer, M., Ashelford, K., Paskiewicz, K. H., Harrsion, R. J., Hughes, D. J., Wolf, T., Shelest, E., Graap, J., Hoffmann, J., Wenzel, C., Woltje, N., King, K. M., Fitt, B. D. L., Guldener, U., Avrova, A. and Knogge, W. 2016. Comparative genomics to explore phylogenetic relationship, cryptic sexual potential and host specificity of Rhynchosporium species on grasses. BMC Genomics. 17, pp. 953 (1-32p). https://doi.org/10.1186/s12864-016-3299-5

The genome of the emerging barley pathogen Ramularia collo-cygni

A - Papers appearing in refereed journals
McGrann, G. R. D., Andongabo, A. E., Sjokvist, E., Trivedi, U., Dussart, F., Kaczmarek, M., Mackenzie, A., Fountaine, J. M., Taylor, J. M. G., Paterson, L. J., Gorniak, K., Burnett, F., Kanyuka, K., Hammond-Kosack, K. E., Rudd, J. J., Blaxter, M. and Havis, N. D. 2016. The genome of the emerging barley pathogen Ramularia collo-cygni. BMC Genomics. 17 (1), p. 584. https://doi.org/10.1186/s12864-016-2928-3

Genome-wide analysis of autophagy-associated genes in foxtail millet (Setaria italica L.) and characterization of the function of SiATG8a in conferring tolerance to nitrogen starvation in rice

A - Papers appearing in refereed journals
Li, W. W., Chen, M., Wang, E. H., Hu, L. Q., Hawkesford, M. J., Zhong, L., Chen, Z., Xu, Z. S., Li, L. C., Zhou, Y. B., Guo, C. H. and Ma, Y. Z. 2016. Genome-wide analysis of autophagy-associated genes in foxtail millet (Setaria italica L.) and characterization of the function of SiATG8a in conferring tolerance to nitrogen starvation in rice. BMC Genomics. 17 (797), pp. 1-16. https://doi.org/10.1186/s12864-016-3113-4

The completed genome sequence of the pathogenic ascomycete fungus Fusarium graminearum

A - Papers appearing in refereed journals
King, R., Urban, M., Hammond-Kosack, M. C. U., Hassani-Pak, K. and Hammond-Kosack, K. E. 2015. The completed genome sequence of the pathogenic ascomycete fungus Fusarium graminearum. BMC Genomics. 16, p. 544. https://doi.org/10.1186/s12864-015-1756-1

Unraveling incompatibility between wheat and the fungal pathogen Zymoseptoria tritici through apoplastic proteomics

A - Papers appearing in refereed journals
Yang, F., Li, W., Derbyshire, M., Larsen, M. R., Rudd, J. J. and Palmisano, G. 2015. Unraveling incompatibility between wheat and the fungal pathogen Zymoseptoria tritici through apoplastic proteomics. BMC Genomics. 16, p. 362. https://doi.org/10.1186/s12864-015-1549-6

Whole-genome analysis of Fusarium graminearum insertional mutants identifies virulence associated genes and unmasks untagged chromosomal deletions

A - Papers appearing in refereed journals
Urban, M., King, R., Hassani-Pak, K. and Hammond-Kosack, K. E. 2015. Whole-genome analysis of Fusarium graminearum insertional mutants identifies virulence associated genes and unmasks untagged chromosomal deletions. BMC Genomics. 16, p. 261. https://doi.org/10.1186/s12864-015-1412-9

Comparative transcriptomic analyses revealed divergences of two agriculturally important aphid species

A - Papers appearing in refereed journals
Wang, D., Liu, Q., Jones, H. D., Bruce, T. J. A. and Xia, L. 2014. Comparative transcriptomic analyses revealed divergences of two agriculturally important aphid species. BMC Genomics. 15, p. 1023. https://doi.org/10.1186/1471-2164-15-1023

Identification of genes expressed in the sex pheromone gland of the black cutworm Agrotis ipsilon with putative roles in sex pheromone biosynthesis and transport

A - Papers appearing in refereed journals
Gu, S-H., Wu, K-M., Guo, Y-Y., Pickett, J. A., Field, L. M., Zhou, J-J. and Zhang, Y-J. 2013. Identification of genes expressed in the sex pheromone gland of the black cutworm Agrotis ipsilon with putative roles in sex pheromone biosynthesis and transport. BMC Genomics. 14, p. 636. https://doi.org/10.1186/1471-2164-14-636

Identifying potential RNAi targets in grain aphid (Sitobion avenae F.) based on transcriptome profiling of its alimentary canal after feeding on wheat plants

A - Papers appearing in refereed journals
Zhang, M., Zhou, Y., Wang, H., Jones, H. D., Gao, Q., Wang, D., Ma, Y. and Xia, L. 2013. Identifying potential RNAi targets in grain aphid (Sitobion avenae F.) based on transcriptome profiling of its alimentary canal after feeding on wheat plants. BMC Genomics. 14, p. 560. https://doi.org/10.1186/1471-2164-14-560

A new RNASeq-based reference transcriptome for sugar beet and its application in transcriptome-scale analysis of vernalization and gibberellin responses

A - Papers appearing in refereed journals
Mutasa-Göttgens, E. S., Joshi, A., Holmes, H. F., Hedden, P. and Gottgens, B. 2012. A new RNASeq-based reference transcriptome for sugar beet and its application in transcriptome-scale analysis of vernalization and gibberellin responses. BMC Genomics. 13, p. 99. https://doi.org/10.1186/1471-2164-13-99

Integration of linkage maps for the amphidiploid Brassica napus and comparative mapping with Arabidopsis and Brassica rapa

A - Papers appearing in refereed journals
Wang, J., Lydiate, D. J., Parkin, I. A. P., Falentin, C., Delourme, R., Carion, P. W. C. and King, G. J. 2011. Integration of linkage maps for the amphidiploid Brassica napus and comparative mapping with Arabidopsis and Brassica rapa. BMC Genomics. 12, p. 101 (20pp). https://doi.org/10.1186/1471-2164-12-101

Pyrosequencing the transcriptome of the greenhouse whitefly, Trialeurodes vaporariorum reveals multiple transcripts encoding insecticide targets and detoxifying enzymes

A - Papers appearing in refereed journals
Karatolos, N., Pauchet, Y., Wilkinson, P., Chauhan, R., Denholm, I., Gorman, K. J., Nelson, D. R., Bass, C. G., Ffrench-Constant, R. H. and Williamson, M. S. 2011. Pyrosequencing the transcriptome of the greenhouse whitefly, Trialeurodes vaporariorum reveals multiple transcripts encoding insecticide targets and detoxifying enzymes. BMC Genomics. 12, p. 56 (14pp). https://doi.org/10.1186/1471-2164-12-56

Construction of an integrated genetic linkage map for the A genome of Brassica napus using SSR markers derived from sequenced BACs in B. rapa

A - Papers appearing in refereed journals
Xu, J., Qian, X., Wang, X., Li, R., Cheng, X., Yang, Y., Fu, J., Zhang, S., King, G. J., Wu, J. and Liu, K. 2010. Construction of an integrated genetic linkage map for the A genome of Brassica napus using SSR markers derived from sequenced BACs in B. rapa. BMC Genomics. 11, p. 594. https://doi.org/10.1186/1471-2164-11-594

DArT markers: diversity analyses, genomes comparison, mapping and integration with SSR markers in Triticum monococcum

A - Papers appearing in refereed journals
Jing, H-C., Bayon, C., Kanyuka, K., Berry, S., Wenzl, P., Huttner, E., Kilian, A. and Hammond-Kosack, K. E. 2009. DArT markers: diversity analyses, genomes comparison, mapping and integration with SSR markers in Triticum monococcum. BMC Genomics. 10, p. 458 (17pp). https://doi.org/10.1186/1471-2164-10-458

Transcriptome analysis of grain development in hexaploid wheat

A - Papers appearing in refereed journals
Wan, Y., Poole, R. L., Huttly, A. K., Toscano-Underwood, C., Feeney, K., Welham, S. J., Gooding, M. J., Mills, C., Edwards, K. J., Shewry, P. R. and Mitchell, R. A. C. 2008. Transcriptome analysis of grain development in hexaploid wheat. BMC Genomics. 9, p. 121 (16pp). https://doi.org/10.1186/1471-2164-9-121