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All Outputs (26)

Integrating Genetic and Genomic Analyses of Combined Health Data Across Ecotypes to Improve Disease Resistance in Indigenous African Chickens (2020)
Journal Article
Banos, G., Lindsay, V., Desta, T. T., Bettridge, J., Sanchez-Molano, E., Vallejo-Trujillo, A., Matika, O., Dessie, T., Wigley, P., Christley, R. M., Kaiser, P., Hanotte, O., & Psifidi, A. (2020). Integrating Genetic and Genomic Analyses of Combined Health Data Across Ecotypes to Improve Disease Resistance in Indigenous African Chickens. Frontiers in Genetics, 11, 543890

Poultry play an important role in the agriculture of many African countries. The majority of chickens in sub-Saharan Africa are indigenous, raised in villages under semi-scavenging conditions. Vaccinations and biosecurity measures rarely apply, and i... Read More about Integrating Genetic and Genomic Analyses of Combined Health Data Across Ecotypes to Improve Disease Resistance in Indigenous African Chickens.

Role of caecal microbiota in the differential resistance of inbred chicken lines to colonization by Campylobacter jejuni (2020)
Journal Article
Chintoan-Uta, C., Wisedchanwet, T., Glendinning, L., Bremner, A., Psifidi, A., Vervelde, L., Watson, K., Watson, M., & Stevens, M. P. (2020). Role of caecal microbiota in the differential resistance of inbred chicken lines to colonization by Campylobacter jejuni. Applied and Environmental Microbiology, https://doi.org/10.1128/AEM.02607-19

Campylobacter is the leading foodborne bacterial diarrhoeal illness in many countries, with up to 80 % of human cases attributed to the avian reservoir. The only control strategies currently available are stringent on-farm biosecurity and carcass tre... Read More about Role of caecal microbiota in the differential resistance of inbred chicken lines to colonization by Campylobacter jejuni.

Analysis of the Progeny of Sibling Matings Reveals Regulatory Variation Impacting the Transcriptome of Immune Cells in Commercial Chickens (2019)
Journal Article
Freem, L., Summers, K. M., Gheyas, A. A., Psifidi, A., Boulton, K., MacCallum, A., Harne, R., O’Dell, J., Bush, S. J., & Hume, D. A. (2019). Analysis of the Progeny of Sibling Matings Reveals Regulatory Variation Impacting the Transcriptome of Immune Cells in Commercial Chickens. Frontiers in Genetics, 10, https://doi.org/10.3389/fgene.2019.01032

The Genetic Architecture of Bovine Telomere Length in Early Life and Association With Animal Fitness (2019)
Journal Article
Ilska-Warner, J. J., Psifidi, A., Seeker, L. A., Wilbourn, R. V., Underwood, S. L., Fairlie, J., Whitelaw, B., Nussey, D. H., Coffey, M. P., & Banos, G. (2019). The Genetic Architecture of Bovine Telomere Length in Early Life and Association With Animal Fitness. Frontiers in Genetics, 10, https://doi.org/10.3389/fgene.2019.01048

Health and survival are key goals for selective breeding in farm animals. Progress, however, is often limited by the low heritability of these animal fitness traits in addition to measurement difficulties. In this respect, relevant early-life biomark... Read More about The Genetic Architecture of Bovine Telomere Length in Early Life and Association With Animal Fitness.

Genome reconstruction of a novel carbohydrate digesting bacterium from the chicken caecal microflora (2019)
Journal Article
Hinsu, A. T., Pandit, R. J., Patel, S. H., Psifidi, A., Tomley, F. M., Das, S. K., Blake, D. P., & Joshi, C. G. (2019). Genome reconstruction of a novel carbohydrate digesting bacterium from the chicken caecal microflora. https://doi.org/10.1016/j.mgene.2019.01.002

The advent of metagenomics using Next-Generation Sequencing (NGS) has led to the acquisition of unprecedented quantities of bacterial sequence data. One use for these data is the recovery of complete genomes of uncultivable, and thus uncharacterised,... Read More about Genome reconstruction of a novel carbohydrate digesting bacterium from the chicken caecal microflora.

Colonization of a commercial broiler line by Campylobacter is under limited genetic control and does not significantly impair performance or intestinal health (2018)
Journal Article
Bailey, R. A., Kranis, A., Psifidi, A., Watson, K. A., Rothwell, L., Hocking, P. M., Kaiser, P., Stevens, M. P., & Avendano, S. (2018). Colonization of a commercial broiler line by Campylobacter is under limited genetic control and does not significantly impair performance or intestinal health. Poultry Science, 97(12), 4167-4176. https://doi.org/10.3382/ps/pey295

Campylobacter is the leading bacterial cause of foodborne diarrheal illness in humans and source attribution studies unequivocally identify handling or consumption of poultry meat as a key risk factor. Campylobacter colonizes the avian intestines in... Read More about Colonization of a commercial broiler line by Campylobacter is under limited genetic control and does not significantly impair performance or intestinal health.

Dissecting the Genomic Architecture of Resistance to Eimeria maxima Parasitism in the Chicken (2018)
Journal Article
Boulton, K., Nolan, M. J., Wu, Z., Riggio, V., Matika, O., Harman, K., Hocking, P. M., Bumstead, N., Hesketh, P., Archer, A., Bishop, S. C., Kaiser, P., Tomley, F. M., Hume, D. A., Smith, A. L., Blake, D. P., & Psifidi, A. (2018). Dissecting the Genomic Architecture of Resistance to Eimeria maxima Parasitism in the Chicken. Frontiers in Genetics, 9, https://doi.org/10.3389/fgene.2018.00528

Coccidiosis in poultry, caused by protozoan parasites of the genus Eimeria, is an intestinal disease with substantial economic impact. With the use of anticoccidial drugs under public and political pressure, and the comparatively higher cost of live-... Read More about Dissecting the Genomic Architecture of Resistance to Eimeria maxima Parasitism in the Chicken.

The role of local adaptation in sustainable production of village chickens (2018)
Journal Article
Bettridge, J. M., Psifidi, A., Terfa, Z. G., Desta, T. T., Lozano-Jaramillo, M., Dessie, T., Kaiser, P., Wigley, P., Hanotte, O., & Christley, R. M. (2018). The role of local adaptation in sustainable production of village chickens. https://doi.org/10.1038/s41893-018-0150-9

Village chickens are ubiquitous in smallholder farming systems, contributing to household, local and national economies under diverse environmental, economic and cultural settings. However, they are raised in challenging environments where productivi... Read More about The role of local adaptation in sustainable production of village chickens.

Bovine telomere dynamics and the association between telomere length and productive lifespan (2018)
Journal Article
Seeker, L. A., Ilska, J. J., Psifidi, A., Wilbourn, R., Underwood, S., Fairlie, J., Holland, R., Froy, H., Salvo-Chirnside, E., Bagnall, A., Whitelaw, C., Coffey, M., Nussey, D., & Banos, G. (2018). Bovine telomere dynamics and the association between telomere length and productive lifespan. https://doi.org/10.1038/s41598-018-31185-z

Average telomere length (TL) in blood cells has been shown to decline with age in a range of vertebrate species, and there is evidence that TL is a heritable trait associated with late-life health and mortality in humans. In non-human mammals, few st... Read More about Bovine telomere dynamics and the association between telomere length and productive lifespan.

Microbial diversity and community composition of caecal microbiota in commercial and indigenous Indian chickens determined using 16s rDNA amplicon sequencing (2018)
Journal Article
Pandit, R. J., Hinsu, A. T., Patel, N. V., Koringa, P. G., Jakhesara, S. J., Thakkar, J. R., Shah, T. M., Limon, G., Psifidi, A., Guitian, J., Hume, D. A., Tomley, F. M., Rank, D. N., Raman, M., Tirumurugaan, K. G., Blake, D. P., & Joshi, C. G. (2018). Microbial diversity and community composition of caecal microbiota in commercial and indigenous Indian chickens determined using 16s rDNA amplicon sequencing. Microbiome, 6, 115. https://doi.org/10.1186/s40168-018-0501-9

Microbiota composition, gene pool and its expression in Gir cattle (Bos indicus) rumen under different forage diets using metagenomic and metatranscriptomic approaches (2018)
Journal Article
Pandit, R. J., Hinsu, A. T., Patel, S. H., Jakhesara, S. J., Koringa, P. G., Bruno, F., Psifidi, A., Shah, S. V., & Joshi, C. G. (2018). Microbiota composition, gene pool and its expression in Gir cattle (Bos indicus) rumen under different forage diets using metagenomic and metatranscriptomic approaches. Systematic and Applied Microbiology, 41(4), 374-385. https://doi.org/10.1016/j.syapm.2018.02.002

Zebu (Bos indicus) is a domestic cattle species originating from the Indian subcontinent and now widely domesticated on several continents. In this study, we were particularly interested in understanding the functionally active rumen microbiota of an... Read More about Microbiota composition, gene pool and its expression in Gir cattle (Bos indicus) rumen under different forage diets using metagenomic and metatranscriptomic approaches.

Longitudinal changes in telomere length and associated genetic parameters in dairy cattle analysed using random regression models (2018)
Journal Article
Seeker, L. A., Ilska, J. J., Psifidi, A., Wilbourn, R. V., Underwood, S. L., Fairlie, J., Holland, R., Froy, H., Bagnall, A., Whitelaw, B., Coffey, M., Nussey, D. H., & Banos, G. (2018). Longitudinal changes in telomere length and associated genetic parameters in dairy cattle analysed using random regression models. PLoS ONE, 13(2), https://doi.org/10.1371/journal.pone.0192864

Telomeres cap the ends of linear chromosomes and shorten with age in many organisms. In humans short telomeres have been linked to morbidity and mortality. With the accumulation of longitudinal datasets the focus shifts from investigating telomere le... Read More about Longitudinal changes in telomere length and associated genetic parameters in dairy cattle analysed using random regression models.

Variants in the 3'UTR of the ovine Acetyl-Coenzyme A Acyltransferase 2 gene are associated with dairy traits and exhibit differential allelic expression (2017)
Journal Article
Miltiadou, D., Hager-Theodorides, A., Symeou, S., Constantinou, C., Psifidi, A., Banos, G., & Tzamaloukas, O. (2017). Variants in the 3'UTR of the ovine Acetyl-Coenzyme A Acyltransferase 2 gene are associated with dairy traits and exhibit differential allelic expression. Journal of Dairy Science, 100(8), 6285-6297. https://doi.org/10.3168/jds.2016-12326

The acetyl-CoA acyltransferase 2 (ACAA2) gene encodes an enzyme of the thiolase family that is involved in mitochondrial fatty acid elongation and degradation by catalyzing the last step of the respective β-oxidation pathway. The increased energy nee... Read More about Variants in the 3'UTR of the ovine Acetyl-Coenzyme A Acyltransferase 2 gene are associated with dairy traits and exhibit differential allelic expression.

Method specific calibration corrects for DNA extraction method effects on relative telomere length measurements by quantitative PCR (2016)
Journal Article
Seeker, L. A., Holland, R., Underwood, S., Fairlie, J., Psifidi, A., Ilska, J. J., Bagnall, A., Whitelaw, B., Coffey, M., Banos, G., & Nussey, D. H. (2016). Method specific calibration corrects for DNA extraction method effects on relative telomere length measurements by quantitative PCR. PLoS ONE, https://doi.org/10.1371/journal.pone.0164046

Telomere length (TL) is increasingly being used as a biomarker in epidemiological, biomedical and ecological studies. A wide range of DNA extraction techniques have been used in telomere experiments and recent quantitative PCR (qPCR) based studies su... Read More about Method specific calibration corrects for DNA extraction method effects on relative telomere length measurements by quantitative PCR.

Genome-wide association studies of immune, disease and productivity traits in indigenous chicken ecotypes (2016)
Journal Article
Psifidi, A., Banos, G., Matika, O., Desta, T. T., Bettridge, J., Hume, D. A., Tadelle, D., Christley, R., Wigley, P., Hanotte, O., & Kaiser, P. (2016). Genome-wide association studies of immune, disease and productivity traits in indigenous chicken ecotypes. Genetics Selection Evolution, 48(74), https://doi.org/10.1186/s12711-016-0252-7

The majority of chickens in sub-Saharan Africa are indigenous ecotypes, well adapted to the local environment and raised in scavenging production systems. Although they are generally resilient to disease challenge, routine vaccination and biosecurity... Read More about Genome-wide association studies of immune, disease and productivity traits in indigenous chicken ecotypes.

Comparison of eleven methods for genomic DNA extraction suitable for large-scale whole-genome genotyping and long-term DNA banking using blood samples (2015)
Journal Article
Psifidi, A., Dovas, C. I., Bramis, G., Lazou, T., Russel, C. L., Arsenos, G., & Banos, G. (2015). Comparison of eleven methods for genomic DNA extraction suitable for large-scale whole-genome genotyping and long-term DNA banking using blood samples. PLoS ONE, 10(1), e0115960. https://doi.org/10.1371/journal.pone.0115960

Over the recent years, next generation sequencing and microarray technologies have revolutionized scientific research with their applications to high-throughput analysis of biological systems. Isolation of high quantities of pure, intact, double stra... Read More about Comparison of eleven methods for genomic DNA extraction suitable for large-scale whole-genome genotyping and long-term DNA banking using blood samples.