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  • ItemOpen Access
    Fish Oil for Healthy Aging: Potential Application to Master Athletes
    (2021-09-13) Murphy, Caoileann H.; McGlory, Chris
    Master athletes perform high volumes of exercise training yet display lower levels of physical functioning and exercise performance when compared with younger athletes. Several reports in the clinical literature show that long chain n-3 polyunsaturated fatty acid (LC n-3 PUFA) ingestion promotes skeletal muscle anabolism and strength in untrained older persons. There is also evidence that LC n-3 PUFA ingestion improves indices of muscle recovery following damaging exercise in younger persons. These findings suggest that LC n-3 PUFA intake could have an ergogenic effect in master athletes. However, the beneficial effect of LC n-3 PUFA intake on skeletal muscle in response to exercise training in both older and younger persons is inconsistent and, in some cases, generated from low-quality studies or those with a high risk of bias. Other factors such as the choice of placebo and health status of participants also confound interpretation of existing reports. As such, when considered on balance, the available evidence does not indicate that ingestion of LC n-3 PUFAs above current population recommendations (250–500 mg/day; 2 portions of oily fish per week) enhances exercise performance or recovery from exercise training in master athletes. Further work is now needed related to how the dose, duration, and co-ingestion of LC n-3 PUFAs with other nutrients such as amino acids impact the adaptive response to exercise training. This work should also consider how LC n-3 PUFA supplementation may differentially alter the lipid profile of cellular membranes of key regulatory sites such as the sarcolemma, mitochondria, and sarcoplasmic reticulum.
  • PublicationOpen Access
    PSIX-30 Interaction between rumen microbiome and host feed efficiency phenotype across contrasting breeds and dietary sources
    (2024-09-14) Keogh, Kate; Kenny, David A.; Almeida Alexandre, Pâmela; Waters, Sinead; McGovern, Emily; McGee, Mark; Reverter, Antonio; Pâmela
    Provision of feed accounts for a high proportion of the variable cost in beef production systems, and consequently is a major determinant of overall profitability. Thus, improving the conversion of feed to animal product by identifying and breeding cattle with improved feed efficiency potential provides a method through which feed input costs may be reduced, whilst also contributing to more environmentally sustainable beef production. The rumen microbiome dictates the feed degradation capacity and subsequent nutrient supply in ruminants and is thus potentially impacted by feed efficiency phenotype. However, the relationship between rumen microbiota and host feed efficiency phenotype is yet to be fully elucidated. This is further complicated when contrasting diets, cattle breeds as well as various stages of animal development are considered. The objective of this study was to undertake network analysis on rumen microbiome data generated from two contrasting steer breed types (Charolais and Holstein-Friesian), divergent within-breed for residual feed intake (RFI), and offered contrasting diets during different stages of development: i) high-concentrate during the growing phase; ii) grass silage during the growing phase; iii) zero-grazed grass during the growing phase, and iv) high-concentrate during the finishing phase. From approximately 10 mo of age, Charolais (n = 90) and Holstein-Friesian (n = 77) steers were individually fed each of the aforementioned diets for 70 d, following an adaptation period between each diet. At the end of each dietary phase, RFI was determined for every steer and rumen fluid was sampled using a transesophageal sampling device from the 10 most-efficient (Low-RFI) and the 10 least-efficient (High-RFI) steers within each breed. Rumen fluid samples were then subjected to 16S rRNA sequencing and a network-based systems biology analysis subsequently undertaken using PCIT incorporating the 16S sequencing data and individual RFI values across each breed and dietary phase. A total of 110 microbial taxa were connected (P < 0.05; r > 0.8) to the breed and diet contrasts examined; however, no single microbe was commonly connected to all contrasts. The Pyramidobacter genus was the most represented phylotype, displaying a positive connection with the Charolais steers during the grass silage diet, as well as a negative association with Charolais steers during the first high-concentrate diet and Holstein-Friesian steers during the zero-grazed grass diet. Similarly, of the 35 microbial taxa significantly connected to more than one breed/diet contrast, 12 displayed altered direction of association, indicating a differential relationship between the rumen microbiome and RFI phenotype depending on the prevailing dietary management. Acknowledgement: The animal model used in this study was funded by the Irish Department of Agriculture, Food and the Marine (RSF13/S/519). Kate Keogh received funding for this work from the Research Leaders 2025 program (co-funded by Teagasc and the European Union’s Horizon 2020, Marie Skłodowska-Curie grant agreement number 754380).
  • ItemOpen Access
    SMRT–AgRenSeq-d in potato (Solanum tuberosum) as a method to identify candidates for the nematode resistance Gpa5
    (2023-11-11) Wang, Yuhan; Brown, Lynn H.; Adams, Thomas M.; Cheung, YukWoon; Li, Jie; Vanessa, Vanessa; Tod, Drummond T.; Armstrong, Miles R.; Neugebauer, Konrad; Kaur, Amanpreet; Harrower, Brian; Oome, Stan; Wang, Xiaodan; Bayer, Micha; Hein, Ingo
    Potato is the third most important food crop in the world. Diverse pathogens threaten sustainable crop production but can be controlled, in many cases, through the deployment of disease resistance genes belonging to the family of nucleotide-binding, leucine-rich-repeat (NLR) genes. To identify effective disease resistance genes in established varieties, we have successfully established SMRT–AgRenSeq in tetraploid potatoes and have further enhanced the methodology by including dRenSeq in an approach that we term SMR–AgRenSeq-d. The inclusion of dRenSeq enables the filtering of candidates after the association analysis by establishing a presence/absence matrix across resistant and susceptible varieties that is translated into an F1 score. Using a SMRT–RenSeq-based sequence representation of the NLRome from the cultivar Innovator, SMRT–AgRenSeq-d analyses reliably identified the late blight resistance benchmark genes Rpi-R1, Rpi-R2-like, Rpi-R3a, and Rpi-R3b in a panel of 117 varieties with variable phenotype penetrations. All benchmark genes were identified with an F1 score of 1, which indicates absolute linkage in the panel. This method also identified nine strong candidates for Gpa5 that controls the potato cyst nematode (PCN) species Globodera pallida (pathotypes Pa2/3). Assuming that NLRs are involved in controlling many types of resistances, SMRT–AgRenSeq-d can readily be applied to diverse crops and pathogen systems.
  • ItemOpen Access
    First report of the Phytophthora infestans EU_43_A1 clonal lineage and associated PiCesA3 mutation G1105S in Ireland
    (2024-04-29) Kaur, A.; Doyle, D.; Cooke, D.E.L.; Mullins, E.; Kildea, S.
  • ItemOpen Access
    Transcriptional profiling during infection of potato NLRs and Phytophthora infestans effectors using cDNA enrichment sequencing
    (2024-10-17) Kaur, Amanpreet; Singh, Vikrant; Byrne, Stephen; Armstrong, Miles; Adams, Thomas M.; Harrower, Brian; Gilroy, Eleanor; Mullins, Ewen; Hein, Ingo
    An accurate assessment of host and pathogen gene expression during infection is critical for understanding the molecular aspects of host-pathogen interactions. Often, pathogen-derived transcripts are difficult to ascertain at early infection stages owing to the unfavourable transcript representation compared to the host genes. In this study, we compare two sequencing techniques, RNAseq and enrichment sequencing (RenSeq and PenSeq) of cDNA, to investigate gene expression patterns in the doubled monoploid potato (DM) infected with the late blight pathogen Phytophthora infestans. Our results reveal distinct advantages of cDNA RenSeq and PenSeq over traditional RNAseq in terms of target gene representation and transcriptional quantification at early infection stages. Throughout the infection time course, cDNA enrichment sequencing enables transcriptomic analyses for more targeted host and pathogen genes. For highly expressed genes that were sampled in parallel by both cDNA enrichment and RNAseq, a high level of concordance in expression profiles is observed, indicative of at least semi-quantitative gene expression representation following enrichment.

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