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1.
Cell ; 175(2): 347-359.e14, 2018 10 04.
Article in English | MEDLINE | ID: mdl-30290141

ABSTRACT

We analyze whole-genome sequencing data from 141,431 Chinese women generated for non-invasive prenatal testing (NIPT). We use these data to characterize the population genetic structure and to investigate genetic associations with maternal and infectious traits. We show that the present day distribution of alleles is a function of both ancient migration and very recent population movements. We reveal novel phenotype-genotype associations, including several replicated associations with height and BMI, an association between maternal age and EMB, and between twin pregnancy and NRG1. Finally, we identify a unique pattern of circulating viral DNA in plasma with high prevalence of hepatitis B and other clinically relevant maternal infections. A GWAS for viral infections identifies an exceptionally strong association between integrated herpesvirus 6 and MOV10L1, which affects piwi-interacting RNA (piRNA) processing and PIWI protein function. These findings demonstrate the great value and potential of accumulating NIPT data for worldwide medical and genetic analyses.


Subject(s)
Asian People/genetics , Prenatal Diagnosis/methods , Adult , Alleles , China , DNA/genetics , Ethnicity/genetics , Female , Gene Frequency/genetics , Genetic Testing , Genetic Variation/genetics , Genetics, Population/methods , Genome-Wide Association Study/methods , Genomics/methods , Human Migration , Humans , Pregnancy , Sequence Analysis, DNA
2.
Genome Res ; 31(1): 110-120, 2021 01.
Article in English | MEDLINE | ID: mdl-33208456

ABSTRACT

Quantifying and comparing the amount of adaptive evolution among different species is key to understanding how evolution works. Previous studies have shown differences in adaptive evolution across species; however, their specific causes remain elusive. Here, we use improved modeling of weakly deleterious mutations and the demographic history of the outgroup species and ancestral population and estimate that at least 20% of nonsynonymous substitutions between humans and an outgroup species were fixed by positive selection. This estimate is much higher than previous estimates, which did not correct for the sizes of the outgroup species and ancestral population. Next, we jointly estimate the proportion and selection coefficient (p + and s +, respectively) of newly arising beneficial nonsynonymous mutations in humans, mice, and Drosophila melanogaster by examining patterns of polymorphism and divergence. We develop a novel composite likelihood framework to test whether these parameters differ across species. Overall, we reject a model with the same p + and s + of beneficial mutations across species and estimate that humans have a higher p+s + compared with that of D. melanogaster and mice. We show that this result cannot be caused by biased gene conversion or hypermutable CpG sites. We discuss possible biological explanations that could generate the observed differences in the amount of adaptive evolution across species.


Subject(s)
Drosophila melanogaster , Mutation , Amino Acids , Animals , Drosophila melanogaster/genetics , Evolution, Molecular , Humans , Mice , Polymorphism, Genetic
3.
Mol Biol Evol ; 38(9): 3497-3511, 2021 08 23.
Article in English | MEDLINE | ID: mdl-34129037

ABSTRACT

Ancient genomes anchor genealogies in directly observed historical genetic variation and contextualize ancestral lineages with archaeological insights into their geography and cultural associations. However, the majority of ancient genomes are of lower coverage and cannot be directly built into genealogies. Here, we present a fast and scalable method, Colate, the first approach for inferring ancestral relationships through time between low-coverage genomes without requiring phasing or imputation. Our approach leverages sharing patterns of mutations dated using a genealogy to infer coalescence rates. For deeply sequenced ancient genomes, we additionally introduce an extension of the Relate algorithm for joint inference of genealogies incorporating such genomes. Application to 278 present-day and 430 ancient DNA samples of >0.5x mean coverage allows us to identify dynamic population structure and directional gene flow between early farmer and European hunter-gatherer groups. We further show that the previously reported, but still unexplained, increase in the TCC/TTC mutation rate, which is strongest in West Eurasia today, was already present at similar strength and widespread in the Late Glacial Period ~10k-15k years ago, but is not observed in samples >30k years old. It is strongest in Neolithic farmers, and highly correlated with recent coalescence rates between other genomes and a 10,000-year-old Anatolian hunter-gatherer. This suggests gene-flow among ancient peoples postdating the last glacial maximum as widespread and localizes the driver of this mutational signal in both time and geography in that region. Our approach should be widely applicable in future for addressing other evolutionary questions, and in other species.


Subject(s)
DNA, Ancient , Genome , Gene Flow , Genetics, Population , Geography , History, Ancient , Population Dynamics
4.
J Environ Manage ; 283: 112009, 2021 Apr 01.
Article in English | MEDLINE | ID: mdl-33508552

ABSTRACT

Meeting rising demand for oil palm whilst minimizing the loss of tropical biodiversity and associated ecosystem functions is a core conservation challenge. One potential solution is focusing the expansion of high-yielding crops on presently low-yielding farmlands alongside protecting nearby tropical forests that can enhance provision of ecosystem functions. A key question is how this solution would impact invertebrate functional diversity. We focus on oil palm in the Colombian Llanos, where plantations are replacing improved cattle pastures and forest fragments, and on dung beetles, which play key functional roles in nutrient cycling and secondary seed dispersal. We show that functional richness and functional diversity of dung beetles is greater in oil palm than in cattle pasture, and that functional metrics did not differ between oil palm and remnant forest. The abundance-size class profile of dung beetles in oil palm was more similar to forest than to pasture, which had lower abundances of the smallest and largest dung beetles. The abundance of tunneling and rolling dung beetles did not differ between oil palm and forest, while higher forest cover increased the abundance of diurnal and generalist-feeding beetles in oil palm landscapes. This suggests that prioritizing agricultural development on low-yielding cattle pasture will have positive effects on functional diversity and highlights the need for forest protection to maintain ecosystem functioning within agricultural landscapes.


Subject(s)
Coleoptera , Agriculture , Animals , Biodiversity , Cattle , Ecosystem , Forests
5.
Scand J Med Sci Sports ; 28(12): 2638-2642, 2018 Dec.
Article in English | MEDLINE | ID: mdl-30203871

ABSTRACT

Twenty-three resistance trained men 18-35 years (23 [3] years, 1.8 [0.1] m, 81 [10] kg body mass, 2.3 [1.1] years resistance training experience; mean [SD]) performed repeated maximal voluntary isometric squats (ISQ) and countermovement jumps (CMJ) pre- and +30 minutes post a unilateral microbiopsy of m. vastus lateralis. ISQ and CMJ were simultaneously measured by two force plates sampling ipsilateral (biopsied) and contralateral (non-biopsied) limb force. Bilateral limb force (ipsilateral + contralateral) and imbalance (ipsilateral/bilateral) data are reported as % change from pre-biopsy (mean [95% CI]). A post-biopsy reduction in bilateral ISQ peak force (-17 [-23, -11] %; P < 0.001), ISQ rate of force development (RFD; -28 [-41, -15] %, P = 0.002) and CMJ peak take-off force (-7 [-13, -1]%, P = 0.019) occurred. Imbalance was observed for ISQ peak force (3.2 [2.1, 4.3] %, P < 0.001), RFD (2.8 [1.6, 4.0] %, P < 0.001) and CMJ landing (3.3 [1.0, 5.6] %, P = 0.009), resultant of a force transfer from the ipsilateral (biopsied) to the contralateral (non-biopsied) limb. These data suggest that in young, resistance trained men a modulatory influence on maximal voluntary static and dynamic lower-body contractile function is evoked acutely (+30 minutes) following a microbiopsy of m. vastus lateralis.


Subject(s)
Biopsy/adverse effects , Muscle Contraction , Quadriceps Muscle/physiopathology , Adult , Exercise Test , Humans , Male , Resistance Training , Young Adult
6.
J Sports Sci ; 35(24): 2427-2432, 2017 Dec.
Article in English | MEDLINE | ID: mdl-28005466

ABSTRACT

Longitudinal change in body composition for elite-level inter-county hurlers was reported over a single season and four consecutive seasons. Body composition measured by dual-energy x-ray absorptiometry (DXA) of 66 senior, male, outfield players was obtained. Four successive measurements were taken: off-season (OFF1), pre-season (PRE), mid-season (MID) and the off-season of the following season (OFF2). A subsample of 11 hurlers were measured at all time points over 4 consecutive seasons. DXA-derived estimates of fat and lean mass were normalised to stature for analysis (kg∙m‒2); data are (mean [lower: upper, 95% confidence interval]). A concurrent increase of lean mass (0.31 [0.19: 0.43] kg∙m‒2) and loss of fat mass occurred (-0.38 [-0.50: -0.26] kg∙m‒2) OFF1 to PRE. Lean mass accrual was maintained PRE to OFF2 while the initial loss of fat mass was restored MID to OFF2 (0.52 [0.40: 0.64] kg ∙ m‒2), with the trunk acting as the primary region of change. Over the four seasons, a net increase of lean mass was observed (~ 0.9 [0.4: 1.4] kg per annum) with a negligible overall change for fat mass over time. However, the cycling of fat mass (OFF to PRE and MID to OFF) within each season was recurrent season-to-season.


Subject(s)
Body Composition/physiology , Seasons , Track and Field/physiology , Absorptiometry, Photon , Body Fat Distribution , Body Mass Index , Humans , Ireland , Longitudinal Studies , Male , Young Adult
7.
J Sports Sci ; 34(11): 1015-20, 2016.
Article in English | MEDLINE | ID: mdl-26343788

ABSTRACT

Gaelic Football and Hurling are two sporting codes within the Gaelic Athletic Association. The purpose of this study was to report the body composition phenotype of inter-county Gaelic athletic association players, comparing groups by code and field position. 190 senior, male, outfield inter-county players (144 hurlers and 46 Gaelic footballers) were recruited. Stature and body mass was measured, estimates of three components of body composition, i.e., lean mass, fat mass and bone mineral content was obtained by dual energy X-ray absorptiometry (DXA), and normative data for Gaelic athletic association athletes by code and position was compared. Other than in the midfield, there was limited difference in body composition between codes or playing position. Stature-corrected indices nullified any existing group differences between midfielders for both codes. Further comparisons with a non-athletic control group (n = 431) showed no difference for body mass index (BMI); however, the athletic group has a lower fat mass index, with a greater lean mass in accounting for the matched BMI between groups. In addition to providing previously unknown normative data for the Gaelic athletic association athlete, a proportional and independent tissue evaluation of body composition is given.


Subject(s)
Absorptiometry, Photon , Athletes , Body Composition , Adult , Body Height , Body Mass Index , Bone Density , Humans , Ireland , Male , Sports , Young Adult
8.
J Lipid Res ; 55(11): 2416-22, 2014 Nov.
Article in English | MEDLINE | ID: mdl-25225679

ABSTRACT

Recent genome-wide association studies have identified multiple loci robustly associated with plasma lipids, which also contribute to extreme lipid phenotypes. However, these common genetic variants explain <12% of variation in lipid traits. Adiposity is also an important determinant of plasma lipoproteins, particularly plasma TGs and HDL cholesterol (HDLc) concentrations. Thus, interactions between genes and clinical phenotypes may contribute to this unexplained heritability. We have applied a weighted genetic risk score (GRS) for both plasma TGs and HDLc in two large cohorts at the extremes of BMI. Both BMI and GRS were strongly associated with these lipid traits. A significant interaction between obese/lean status and GRS was noted for each of TG (P(Interaction) = 2.87 × 10(-4)) and HDLc (P(Interaction) = 1.05 × 10(-3)). These interactions were largely driven by SNPs tagging APOA5, glucokinase receptor (GCKR), and LPL for TG, and cholesteryl ester transfer protein (CETP), GalNAc-transferase (GALNT2), endothelial lipase (LIPG), and phospholipid transfer protein (PLTP) for HDLc. In contrast, the GRSLDL cholesterol × adiposity interaction was not significant. Sexual dimorphism was evident for the GRSHDL on HDLc in obese (P(Interaction) = 0.016) but not lean subjects. SNP by BMI interactions may provide biological insight into specific genetic associations and missing heritability.


Subject(s)
Adiposity , Dyslipidemias/genetics , Dyslipidemias/metabolism , Genetic Predisposition to Disease , Aged , Body Mass Index , Cholesterol, HDL/blood , Dyslipidemias/blood , Female , Genome-Wide Association Study , Humans , Male , Middle Aged , Polymorphism, Single Nucleotide , Triglycerides/blood
9.
Curr Biol ; 34(6): R251-R254, 2024 03 25.
Article in English | MEDLINE | ID: mdl-38531320

ABSTRACT

An analysis of over 1 million old-growth tropical forest trees reveals that ∼2.2% of species comprise 50% of the individuals in Africa, Amazonia, and Southeast Asia, suggesting that the ecological mechanisms underpinning tree community assembly are ubiquitous across the tropics.


Subject(s)
Trees , Tropical Climate , Africa , Brazil , Ecosystem , Forests
10.
Transl Sports Med ; 2024: 3184356, 2024.
Article in English | MEDLINE | ID: mdl-38716482

ABSTRACT

Methods: Five electronic databases (PubMed (Medline), Web of Science, Embase, Sport Discus, and Cochrane Library) were searched for controlled trials that assessed the MPS response to RE in healthy, adult humans, postabsorptive state. Individual study and random-effects meta-analysis arewere used to inform the effects of RE and covariates on MPS. Results from 79 controlled trials with 237 participants were analysed. Results: Analysis of the pooled effects revealed robust increases in MPS following RE (weighted mean difference (WMD): 0.032% h-1, 95% CI: [0.024, 0.041] % h-1, I2 = 92%, k = 37, P < 0.001). However, the magnitude of the increase in MPS was lower in older adults (>50 y: WMD: 0.015% h-1, 95% CI: [0.007, 0.022] % h-1, I2 = 76%, k = 12, P = 0.002) compared to younger adults (<35 y: WMD: 0.041% h-1, 95% CI: [0.030, 0.052] % h-1, I2 = 88%, k = 25, P < 0.001). Individual studies have reported that the temporal proximity of the RE, muscle group, muscle protein fraction, RE training experience, and the loading parameters of the RE (i.e., intensity, workload, and effort) appeared to affect the MPS response to RE, whereas sex or type of muscle contraction does not. Conclusion: A single bout of RE can sustain measurable increases in postabsorptive MPS soon after RE cessation and up to 48 h post-RE. However, there is substantial heterogeneity in the magnitude and time course of the MPS response between trials, which appears to be influenced by participants' age and/or the loading parameters of the RE itself.

11.
Genome Biol ; 25(1): 111, 2024 04 29.
Article in English | MEDLINE | ID: mdl-38685090

ABSTRACT

BACKGROUND: Untranslated regions (UTRs) are important mediators of post-transcriptional regulation. The length of UTRs and the composition of regulatory elements within them are known to vary substantially across genes, but little is known about the reasons for this variation in humans. Here, we set out to determine whether this variation, specifically in 5'UTRs, correlates with gene dosage sensitivity. RESULTS: We investigate 5'UTR length, the number of alternative transcription start sites, the potential for alternative splicing, the number and type of upstream open reading frames (uORFs) and the propensity of 5'UTRs to form secondary structures. We explore how these elements vary by gene tolerance to loss-of-function (LoF; using the LOEUF metric), and in genes where changes in dosage are known to cause disease. We show that LOEUF correlates with 5'UTR length and complexity. Genes that are most intolerant to LoF have longer 5'UTRs, greater TSS diversity, and more upstream regulatory elements than their LoF tolerant counterparts. We show that these differences are evident in disease gene-sets, but not in recessive developmental disorder genes where LoF of a single allele is tolerated. CONCLUSIONS: Our results confirm the importance of post-transcriptional regulation through 5'UTRs in tight regulation of mRNA and protein levels, particularly for genes where changes in dosage are deleterious and lead to disease. Finally, to support gene-based investigation we release a web-based browser tool, VuTR, that supports exploration of the composition of individual 5'UTRs and the impact of genetic variation within them.


Subject(s)
5' Untranslated Regions , Open Reading Frames , Protein Biosynthesis , Humans , Gene Dosage , Gene Expression Regulation , Transcription Initiation Site , Alternative Splicing , Nucleic Acid Conformation
12.
Int J Sports Physiol Perform ; 18(2): 195-203, 2023 Feb 01.
Article in English | MEDLINE | ID: mdl-36634311

ABSTRACT

PURPOSE: To compare the effects of bilateral strength training (BLST) versus unilateral strength training (ULST) on changes in peak force (PF) and interlimb asymmetry (ILA) in the isometric squat at a 120° knee angle (ISq120). METHOD: A total of 31 young, recreationally strength-trained men performed either BLST (n = 18) or ULST (n = 13), twice per week for 6 weeks. The total number of repetitions, duty cycle, and effort were standardized between training groups (ie, differing only in the exercises performed). Changes in PF and ILA were assessed pretraining and posttraining. RESULTS: Comparable increases in PF were observed in the BLST group (mean [SD] change; 17.4% [20.5%], P = .001, standardized mean difference [SMD] = 0.45) and the ULST group (11.4% [19.1%], P = .042, SMD = 0.25). No significant changes in symmetry index (SI) scores were observed following BLST (mean [SD] change; 0 [5.7], P = .526, SMD = -0.12) or ULST (+3 [6.0], P = .702, SMD = 0.4). Individual analyses of subjects with marked ILA (ie, baseline SI score > baseline coefficient of variation) revealed a trend toward BLST being more effective at attenuating SI scores in the ISq120. CONCLUSIONS: Overall, both BLST and ULST are effective for increasing ISq120 PF. However, it appears that BLST may be more effective at reducing SI scores in those with marked ILA.


Subject(s)
Resistance Training , Male , Humans , Muscle, Skeletal , Muscle Strength , Isometric Contraction , Posture
13.
Nutrients ; 15(19)2023 Sep 29.
Article in English | MEDLINE | ID: mdl-37836496

ABSTRACT

An increase in the intake of legumes is recommended in the promotion of plant-sourced (PSP) rather than animal-sourced (ASP) protein intake to produce a more sustainable diet. This study evaluated the quality of novel PSP isolates from pea (PEA) and fava bean (FAVA) and an ASP isolate of whey (WHEY) and compared the magnitude and temporal pattern of peripheral arterial aminoacidemia following ingestion of 0.33 g·kg-1 body mass of protein isolate in healthy young adult men (n = 9). Total indispensable amino acids (IAA) comprised 58% (WHEY), 46% (PEA), and 42% (FAVA) of the total amino acid (AA) composition, with the ingested protein providing 108% (WHEY), 77% (PEA), and 67% (FAVA) of the recommended per diem requirement of IAA. Reflecting the AA composition, the area under the curve (∆AUC0-180), post-ingestion increase in total IAA for WHEY was 41% (p < 0.001) and 57% (p < 0.001) greater than PEA and FAVA, respectively, with PEA exceeding FAVA by 28% (p = 0.003). As a sole-source, single-dose meal-size serving, the lower total IAA for PEA and FAVA would likely evoke a reduced post-prandial anabolic capacity compared to WHEY. Incorporated into a food matrix, the promotion of PSP isolates contributes to a more sustainable diet.


Subject(s)
Vicia faba , Whey , Humans , Young Adult , Male , Animals , Whey/metabolism , Vicia faba/metabolism , Pisum sativum/metabolism , Whey Proteins/metabolism , Amino Acids , Eating
14.
Nat Commun ; 14(1): 853, 2023 02 15.
Article in English | MEDLINE | ID: mdl-36792598

ABSTRACT

Following the diagnosis of a paediatric disorder caused by an apparently de novo mutation, a recurrence risk of 1-2% is frequently quoted due to the possibility of parental germline mosaicism; but for any specific couple, this figure is usually incorrect. We present a systematic approach to providing individualized recurrence risk. By combining locus-specific sequencing of multiple tissues to detect occult mosaicism with long-read sequencing to determine the parent-of-origin of the mutation, we show that we can stratify the majority of couples into one of seven discrete categories associated with substantially different risks to future offspring. Among 58 families with a single affected offspring (representing 59 de novo mutations in 49 genes), the recurrence risk for 35 (59%) was decreased below 0.1%, but increased owing to parental mixed mosaicism for 5 (9%)-that could be quantified in semen for paternal cases (recurrence risks of 5.6-12.1%). Implementation of this strategy offers the prospect of driving a major transformation in the practice of genetic counselling.


Subject(s)
Fathers , Parturition , Male , Pregnancy , Female , Humans , Child , Mutation , Risk Assessment , Germ Cells , Mosaicism , Pedigree , Germ-Line Mutation
15.
G3 (Bethesda) ; 12(1)2022 01 04.
Article in English | MEDLINE | ID: mdl-34791208

ABSTRACT

Combining samples for genetic association is standard practice in human genetic analysis of complex traits, but is rarely undertaken in rodent genetics. Here, using 23 phenotypes and genotypes from two independent laboratories, we obtained a sample size of 3076 commercially available outbred mice and identified 70 loci, more than double the number of loci identified in the component studies. Fine-mapping in the combined sample reduced the number of likely causal variants, with a median reduction in set size of 51%, and indicated novel gene associations, including Pnpo, Ttll6, and GM11545 with bone mineral density, and Psmb9 with weight. However, replication at a nominal threshold of 0.05 between the two component studies was low, with less than one-third of loci identified in one study replicated in the second. In addition to overestimates in the effect size in the discovery sample (Winner's Curse), we also found that heterogeneity between studies explained the poor replication, but the contribution of these two factors varied among traits. Leveraging these observations, we integrated information about replication rates, study-specific heterogeneity, and Winner's Curse corrected estimates of power to assign variants to one of four confidence levels. Our approach addresses concerns about reproducibility and demonstrates how to obtain robust results from mapping complex traits in any genome-wide association study.


Subject(s)
Genome-Wide Association Study , Polymorphism, Single Nucleotide , Animals , Genetic Predisposition to Disease , Genome-Wide Association Study/methods , Mice , Multifactorial Inheritance , Peptide Synthases , Phenotype , Reproducibility of Results
16.
Med Sci (Basel) ; 10(4)2022 09 22.
Article in English | MEDLINE | ID: mdl-36278523

ABSTRACT

BACKGROUND: Guidelines for the management of polycystic ovary syndrome (PCOS) focus on lifestyle changes, incorporating exercise. Whilst evidence suggests that aerobic exercise may be beneficial, less is known about the effectiveness of resistance training (RT), which may be more feasible for those that have low fitness levels and/or are unable to tolerate/participate in aerobic exercise. OBJECTIVES: To identify the available evidence on RT in women with PCOS and to summarise findings in the context of a scoping review. ELIGIBILITY CRITERIA: Studies utilising pre-post designs to assess the effectiveness of RT in PCOS; all outcomes were included. SOURCES OF EVIDENCE: Four databases (PubMed, CENTRAL, CINAHL and SportDiscus) were searched and supplemented by hand searching of relevant papers/reference lists. CHARTING METHODS: Extracted data were presented in tables and qualitatively synthesised. RESULTS: Searches returned 42 papers; of those, 12 papers were included, relating to six studies/trials. Statistical changes were reported for multiple pertinent outcomes relating to metabolic (i.e., glycaemia and fat-free mass) and hormonal (i.e., testosterone and sex hormone-binding globulin) profiles. CONCLUSIONS: There is a striking lack of studies in this field and, despite the reported statistical significance for many outcomes, the documented magnitude of changes are small and the quality of the evidence questionable. This highlights an unmet need for rigorously designed/reported and sufficiently powered trials.


Subject(s)
Polycystic Ovary Syndrome , Resistance Training , Humans , Female , Polycystic Ovary Syndrome/therapy , Sex Hormone-Binding Globulin , Life Style , Testosterone
17.
Nutrients ; 14(18)2022 Sep 06.
Article in English | MEDLINE | ID: mdl-36145064

ABSTRACT

The aim of the present study was to evaluate the effect of feeding fava bean (Vicia faba L.) protein (FBP) on resting and post-exercise myofibrillar fractional synthetic rate (myoFSR). In a parallel, double-blind, randomised control trial, sixteen young, healthy recreationally active adults (age = 25 (5) years, body mass = 70 (15) kg, stature = 1.72 (0.11) m, mean (SD)) ingested 0.33 g·kg-1 FBP (n = 8) or a negative control (CON, i.e., EAA-free mixture) (n = 8), immediately after a bout of unilateral knee-extensor resistance exercise. Plasma, saliva, and m. vastus lateralis muscle samples were obtained pre-ingestion and 3 h post-ingestion. MyoFSR was calculated via deuterium labelling of myofibrillar-bound alanine, measured by gas chromatography-pyrolysis-isotope ratio mass spectrometry (GC-Pyr-IRMS). Resistance exercise increased myoFSR (p = 0.012). However, ingestion of FBP did not evoke an increase in resting (FBP 29 [-5, 63] vs. CON 12 [-25, 49]%, p = 0.409, mean % change [95% CI]) or post-exercise (FBP 78 [33, 123]% vs. CON 58 [9, 107]%, p = 0.732) myoFSR. Ingestion of 0.33 g·kg-1 of FBP does not appear to enhance resting or post-exercise myoFSR in young, healthy, recreationally active adults.


Subject(s)
Resistance Training , Vicia faba , Adult , Alanine/metabolism , Deuterium/metabolism , Eating , Female , Humans , Male , Muscle, Skeletal/metabolism
18.
Sports (Basel) ; 9(10)2021 Oct 09.
Article in English | MEDLINE | ID: mdl-34678921

ABSTRACT

This study aimed to investigate the test-retest reliability of peak force in the isometric squat across the strength spectrum using coefficient of variation (CV) and intra-class correlation coefficient (ICC). On two separate days, 59 healthy men (mean (SD) age 23.0 (4.1) years; height 1.79 (0.7) m; body mass 84.0 (15.2) kg) performed three maximal effort isometric squats in two positions (at a 120° and a 90° knee angle). Acceptable reliability was observed at both the 120° (CV = 7.5 (6.7), ICC = 0.960 [0.933, 0.977]) and 90° positions (CV = 9.2 (8.8), ICC = 0.920 [0.865, 0.953]). There was no relationship between peak force in the isometric squat and the test-retest reliability at either the 120° (r = 0.052, p = 0.327) or 90° (r = 0.014, p = 0.613) positions. A subgroup of subjects (n = 17) also completed the isometric squat test at a 65° knee angle. Acceptable reliability was observed in this position (CV = 9.6 (9.3), ICC = 0.916 [0.766, 0.970]) and reliability was comparable to the 120° and 90° positions. Therefore, we deem isometric squat peak force output to be a valid and reliable measure across the strength spectrum and in different isometric squat positions.

19.
Nat Genet ; 53(7): 1104-1111, 2021 07.
Article in English | MEDLINE | ID: mdl-34083788

ABSTRACT

Inexpensive genotyping methods are essential to modern genomics. Here we present QUILT, which performs diploid genotype imputation using low-coverage whole-genome sequence data. QUILT employs Gibbs sampling to partition reads into maternal and paternal sets, facilitating rapid haploid imputation using large reference panels. We show this partitioning to be accurate over many megabases, enabling highly accurate imputation close to theoretical limits and outperforming existing methods. Moreover, QUILT can impute accurately using diverse technologies, including long reads from Oxford Nanopore Technologies, and a new form of low-cost barcoded Illumina sequencing called haplotagging, with the latter showing improved accuracy at low coverages. Relative to DNA genotyping microarrays, QUILT offers improved accuracy at reduced cost, particularly for diverse populations that are traditionally underserved in modern genomic analyses, with accuracy nearly doubling at rare SNPs. Finally, QUILT can accurately impute (four-digit) human leukocyte antigen types, the first such method from low-coverage sequence data.


Subject(s)
Computational Biology/methods , Genotype , Genotyping Techniques , Whole Genome Sequencing , Computational Biology/economics , Diploidy , Humans , Polymorphism, Single Nucleotide , Reproducibility of Results , Sequence Analysis, DNA
20.
Europace ; 12(8): 1078-83, 2010 Aug.
Article in English | MEDLINE | ID: mdl-20543198

ABSTRACT

AIMS: Atrial fibrillation (AF), the most common sustained cardiac arrhythmia, is an important cause of morbidity and mortality. A genetic mutation in the NPPA gene, which encodes the atrial natriuretic peptide, has been identified as the putative causative factor in a family with an autosomal dominant pattern of inheritance for AF. Two common single nucleotide polymorphisms (SNPs) in NPPA, rs5063 and rs5065, result in amino acid changes of the primary peptide and have been previously implicated in conditions associated with AF, including stroke and hypertension. Recently, the rs5063 SNP has been reported to confer an increased risk of AF development in a Chinese population. We sought to examine the associations of both rs5063 and rs5065 with AF in two separate North American cohorts of European ancestry. METHODS AND RESULTS: Patients with early-onset AF, along with healthy controls, were recruited at the University of Ottawa Heart Institute (UOHI) and the Massachusetts General Hospital (MGH). Study participants were genotyped for rs5063 and rs5065 using a combination of restriction fragment length polymorphism analysis and DNA microarrays. The study genotyped a total of 620 AF cases and 2446 healthy controls. The UOHI arm of the study identified an odds ratio (OR) of 0.72 [95% confidence interval (CI): 0.42-1.24] for rs5063, whereas an OR of 1.33 (95% CI: 0.80-2.21) was observed in the MGH arm. The combined OR approximated unity (OR 0.99; 95% CI: 0.54-1.80). Analysis of rs5065 revealed an OR of 1.12 (95% CI: 0.84-1.48) in UOHI, 1.08 (95% CI 0.80-1.45) in MGH, and 1.10 (95% CI 0.90-1.35) when combined. CONCLUSION: Common non-synonymous genetic variants within NPPA in these two large North American cohorts of European ancestry are not associated with the development of AF.


Subject(s)
Atrial Fibrillation/ethnology , Atrial Fibrillation/genetics , Atrial Natriuretic Factor/genetics , Polymorphism, Single Nucleotide , White People/statistics & numerical data , Adult , Aged , Case-Control Studies , Female , Genetic Predisposition to Disease/ethnology , Genotype , Humans , Male , Middle Aged , North America/epidemiology , Protein Processing, Post-Translational/physiology
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