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1.
Heredity (Edinb) ; 131(4): 263-272, 2023 Oct.
Article in English | MEDLINE | ID: mdl-37542195

ABSTRACT

Amphibians represent a useful taxon to study the evolution of sex determination because of their highly variable sex-determination systems. However, the sex-determination system for many amphibian families remains unknown, in part because of a lack of genomic resources. Here, using an F1 family of Green-eyed Treefrogs (Litoria serrata), we produce the first genetic linkage map for any Australo-Papuan Treefrogs (family: Pelodryadidae). The resulting linkage map contains 8662 SNPs across 13 linkage groups. Using an independent set of sexed adults, we identify a small region in linkage group 6 matching an XY sex-determination system. These results suggest Litoria serrata possesses a male heterogametic system, with a candidate sex-determination locus on linkage group 6. Furthermore, this linkage map represents the first genomic resource for Australo-Papuan Treefrogs, an ecologically diverse family of over 220 species.

2.
Fish Shellfish Immunol ; 124: 391-400, 2022 May.
Article in English | MEDLINE | ID: mdl-35462004

ABSTRACT

In flounder aquaculture, selective breeding plays a vital role in the development of disease-resistant traits and animals with high growth rates. Moreover, superior animals are required to achieve high profits. Unlike growth-related traits, disease-resistant experiments need to be conducted in a controlled environment, as the improper measurement of traits often leads to low genetic correlation and incorrect estimation of breeding values. In this study, viral hemorrhagic septicemia virus (VHSV) resistance was studied using a genome-wide association study (GWAS), and the genetic parameters were estimated. Genotyping was performed using a high-quality 70 K single nucleotide polymorphism (SNP) Affymetrix® Axiom® myDesign™ Genotyping Array of olive flounder. A heritability of ∼0.18 for resistance to VHSV was estimated using genomic information of the fish. According to the GWAS, significant SNPs were detected in chromosomes 21, 24, and contig AGQT02032065.1. Three SNPs showed significance at the genome-wide level (p < 1 × 10-6), while others showed significance above the suggestive cutoff (p < 1 × 10-4). The 3% phenotypic variation was explained by the highest significant SNP, named AX-419319631. Of the important genes for disease resistance, SNPs were associated with plcg1, epha4, clstn2, pik3cb, hes6, meis3, prx6, cep164, siae, and kirrel3b. Most of the genes associated with these SNPs have been previously reported with respect to viral entry, propagation, and immune mechanisms. Therefore, our study provides helpful information regarding VHSV resistance in olive flounder, which can be used for breeding applications.


Subject(s)
Fish Diseases , Flounder , Hemorrhagic Septicemia, Viral , Novirhabdovirus , Animals , Aquaculture , Flounder/genetics , Genome-Wide Association Study/veterinary , Hemorrhagic Septicemia, Viral/genetics
3.
Clin Infect Dis ; 72(12): e931-e937, 2021 06 15.
Article in English | MEDLINE | ID: mdl-33136139

ABSTRACT

BACKGROUND: Nontuberculous mycobacteria (NTM) are a rare cause of infectious tenosynovitis of the upper extremity. Using molecular methods, clinical microbiology laboratories are increasingly reporting identification down to the species level. Improved methods for speciation are revealing new insights into the clinical and epidemiologic features of rare NTM infections. METHODS: We encountered 3 cases of epidemiologically linked upper extremity NTM tenosynovitis associated with exposure to hurricane-damaged wood. We conducted whole-genome sequencing to assess isolate relatedness followed by a literature review of NTM infections that involved the upper extremity. RESULTS: Despite shared epidemiologic risk, the cases were caused by 3 distinct organisms. Two cases were rare infections caused by closely related but distinct species within the Mycobacterium terrae complex that could not be differentiated by traditional methods. The third case was caused by Mycobacterium intracellulare. An updated literature review that focused on research that used modern molecular speciation methods found that several species within the M. terrae complex are increasingly reported as a cause of upper extremity tenosynovitis, often in association with environmental exposures. CONCLUSIONS: These cases illustrate the importance of molecular methods for speciating phenotypically similar NTM, as well as the limitations of laboratory-based surveillance in detecting point-source outbreaks when the source is environmental and may involve multiple organisms.


Subject(s)
Cyclonic Storms , Mycobacterium Infections, Nontuberculous , Tenosynovitis , Humans , Mycobacterium Infections, Nontuberculous/epidemiology , Mycobacterium avium Complex , Nontuberculous Mycobacteria/genetics , Tenosynovitis/epidemiology
4.
BMC Genomics ; 21(1): 541, 2020 Aug 05.
Article in English | MEDLINE | ID: mdl-32758142

ABSTRACT

BACKGROUND: The development of genome-wide genotyping resources has provided terrestrial livestock and crop industries with the unique ability to accurately assess genomic relationships between individuals, uncover the genetic architecture of commercial traits, as well as identify superior individuals for selection based on their specific genetic profile. Utilising recent advancements in de-novo genome-wide genotyping technologies, it is now possible to provide aquaculture industries with these same important genotyping resources, even in the absence of existing genome assemblies. Here, we present the development of a genome-wide SNP assay for the Black Tiger shrimp (Penaeus monodon) through utilisation of a reduced-representation whole-genome genotyping approach (DArTseq). RESULTS: Based on a single reduced-representation library, 31,262 polymorphic SNPs were identified across 650 individuals obtained from Australian wild stocks and commercial aquaculture populations. After filtering to remove SNPs with low read depth, low MAF, low call rate, deviation from HWE, and non-Mendelian inheritance, 7542 high-quality SNPs were retained. From these, 4236 high-quality genome-wide loci were selected for baits-probe development and 4194 SNPs were included within a finalized target-capture genotype-by-sequence assay (DArTcap). This assay was designed for routine and cost effective commercial application in large scale breeding programs, and demonstrates higher confidence in genotype calls through increased call rate (from 80.2 ± 14.7 to 93.0% ± 3.5%), increased read depth (from 20.4 ± 15.6 to 80.0 ± 88.7), as well as a 3-fold reduction in cost over traditional genotype-by-sequencing approaches. CONCLUSION: Importantly, this assay equips the P. monodon industry with the ability to simultaneously assign parentage of communally reared animals, undertake genomic relationship analysis, manage mate pairings between cryptic family lines, as well as undertake advance studies of genome and trait architecture. Critically this assay can be cost effectively applied as P. monodon breeding programs transition to undertaking genomic selection.


Subject(s)
Penaeidae , Animals , Australia , Genome , Genomics , Genotype , Penaeidae/genetics , Polymorphism, Single Nucleotide
5.
Mol Ecol ; 26(21): 5974-5988, 2017 Nov.
Article in English | MEDLINE | ID: mdl-28833825

ABSTRACT

Some populations of marine organisms appear to have inherent tolerance or the capacity for acclimation to stressful environmental conditions, including those associated with climate change. Sydney rock oysters from the B2 breeding line exhibit resilience to ocean acidification (OA) at the physiological level. To understand the molecular basis of this physiological resilience, we analysed the gill transcriptome of B2 oysters that had been exposed to near-future projected ocean pH over two consecutive generations. Our results suggest that the distinctive performance of B2 oysters in the face of OA is mediated by the selective expression of genes involved in multiple cellular processes. Subsequent high-throughput qPCR revealed that some of these transcriptional changes are exclusive to B2 oysters and so may be associated with their resilience to OA. The intracellular processes mediated by the differentially abundant genes primarily involve control of the cell cycle and maintenance of cellular homeostasis. These changes may enable B2 oysters to prevent apoptosis resulting from oxidative damage or to alleviate the effects of apoptosis through regulation of the cell cycle. Comparative analysis of the OA conditioning effects across sequential generations supported the contention that B2 and wild-type oysters have different trajectories of changing gene expression and responding to OA. Our findings reveal the broad set of molecular processes underlying transgenerational conditioning and potential resilience to OA in a marine calcifier. Identifying the mechanisms of stress resilience can uncover the intracellular basis for these organisms to survive and thrive in a rapidly changing ocean.


Subject(s)
Acclimatization/genetics , Gene Expression Profiling , Ostreidae/genetics , Seawater/chemistry , Animals , Carbon Dioxide/chemistry , Climate Change , Gills , Hydrogen-Ion Concentration , New South Wales , Stress, Physiological , Transcriptome
6.
J Cardiothorac Vasc Anesth ; 29(2): 536-41, 2015 Apr.
Article in English | MEDLINE | ID: mdl-25572322

ABSTRACT

The first decade of clinical experience with transcatheter aortic valve replacement since 2002 saw the development of 2 main valve systems, namely the Edwards Sapien balloon-expandable valve series and the Medtronic self-expanding CoreValve. These 2 valve platforms now have achieved commercial approval and application worldwide in patients with severe aortic stenosis whose perioperative risk for surgical intervention is high or extreme. In the second decade of transcatheter aortic valve replacement, clinical experience and refinements in valve design have resulted in clinical drift towards lower patient risk cohorts. There are currently 2 major trials, PARTNER II and SURTAVI, that are both evaluating the role of transcatheter aortic valve replacement in intermediate-risk patient cohorts. The results from these landmark trials may usher in a new clinical paradigm for transcatheter aortic valve replacement in its second decade.


Subject(s)
Aortic Valve Stenosis/surgery , Heart Valve Prosthesis/trends , Prosthesis Design/trends , Transcatheter Aortic Valve Replacement/trends , Aortic Valve Stenosis/diagnosis , Clinical Trials as Topic/methods , Humans , Transcatheter Aortic Valve Replacement/instrumentation , Transcatheter Aortic Valve Replacement/methods , Treatment Outcome
7.
J Hand Surg Am ; 40(4): 738-44, 2015 Apr.
Article in English | MEDLINE | ID: mdl-25701489

ABSTRACT

PURPOSE: To determine if the absence (type I lunate) or presence (type II lunate) of a medial hamate facet on the lunate affects the radiographic characteristics of patients presenting with Kienböck disease. METHODS: A retrospective review was performed on all patients evaluated at our institution from 2002 to 2010 with a diagnosis of Kienböck disease confirmed on plain radiographs in concert with magnetic resonance imaging (MRI) and/or bone scan. Study groups consisted of patients with type I versus type II lunates, as determined by radiographs, MRI, and/or computed tomography. Measured variables included the modified Lichtman stage on presentation, radioscaphoid angle, presence or absence of a coronal plane fracture of the lunate, modified carpal height, ulnar variance, and ulnar translocation of the carpus at the time of presentation. RESULTS: A total of 106 wrists were examined, of which 75 were type I (71%) and 31 were type II (29%) lunates. At the time of presentation, there was significantly more advanced disease (stage IIIA or greater) in patients with type I (N = 64, 86%) compared with those with type II lunates (N = 19, 61%). Coronal fractures of the lunate were more prevalent in patients with type I (N = 58, 75%) compared with type II lunates (N = 18, 58%). In the absence of a coronal fracture, radioscaphoid angles were greater in patients with a type I (53°) versus a type II lunate (45°). CONCLUSIONS: Lunate morphology may affect the severity of Kienböck disease at the time of initial presentation. Type II lunates appear to be protective against coronal fractures and scaphoid flexion deformities. This study provides further evidence that lunate morphology affects carpal pathology and may have implications for treatment options in Kienböck disease. TYPE OF STUDY/LEVEL OF EVIDENCE: Prognostic III.


Subject(s)
Lunate Bone/pathology , Osteonecrosis/pathology , Adolescent , Adult , Aged , Carpal Bones/diagnostic imaging , Female , Humans , Male , Middle Aged , Osteonecrosis/classification , Radiography , Retrospective Studies , Wrist Joint/diagnostic imaging , Young Adult
8.
BMC Genomics ; 14: 810, 2013 Nov 20.
Article in English | MEDLINE | ID: mdl-24252414

ABSTRACT

BACKGROUND: The silver-lipped pearl oyster, Pinctada maxima, is an important tropical aquaculture species extensively farmed for the highly sought "South Sea" pearls. Traditional breeding programs have been initiated for this species in order to select for improved pearl quality, but many economic traits under selection are complex, polygenic and confounded with environmental factors, limiting the accuracy of selection. The incorporation of a marker-assisted selection (MAS) breeding approach would greatly benefit pearl breeding programs by allowing the direct selection of genes responsible for pearl quality. However, before MAS can be incorporated, substantial genomic resources such as genetic linkage maps need to be generated. The construction of a high-density genetic linkage map for P. maxima is not only essential for unravelling the genomic architecture of complex pearl quality traits, but also provides indispensable information on the genome structure of pearl oysters. RESULTS: A total of 1,189 informative genome-wide single nucleotide polymorphisms (SNPs) were incorporated into linkage map construction. The final linkage map consisted of 887 SNPs in 14 linkage groups, spans a total genetic distance of 831.7 centimorgans (cM), and covers an estimated 96% of the P. maxima genome. Assessment of sex-specific recombination across all linkage groups revealed limited overall heterochiasmy between the sexes (i.e. 1.15:1 F/M map length ratio). However, there were pronounced localised differences throughout the linkage groups, whereby male recombination was suppressed near the centromeres compared to female recombination, but inflated towards telomeric regions. Mean values of LD for adjacent SNP pairs suggest that a higher density of markers will be required for powerful genome-wide association studies. Finally, numerous nacre biomineralization genes were localised providing novel positional information for these genes. CONCLUSIONS: This high-density SNP genetic map is the first comprehensive linkage map for any pearl oyster species. It provides an essential genomic tool facilitating studies investigating the genomic architecture of complex trait variation and identifying quantitative trait loci for economically important traits useful in genetic selection programs within the P. maxima pearling industry. Furthermore, this map provides a foundation for further research aiming to improve our understanding of the dynamic process of biomineralization, and pearl oyster evolution and synteny.


Subject(s)
Chromosome Mapping , Pinctada/genetics , Polymorphism, Single Nucleotide/genetics , Selection, Genetic , Animals , Expressed Sequence Tags , Genetic Linkage , Microsatellite Repeats , Quantitative Trait Loci/genetics , Recombination, Genetic , Synteny/genetics
9.
J Hand Surg Am ; 38(9): 1806-11, 2013 Sep.
Article in English | MEDLINE | ID: mdl-23928018

ABSTRACT

Several techniques of thumb basilar joint arthroplasty depend on an intact flexor carpi radialis (FCR) tendon. There are situations, however, when the FCR tendon may be attenuated or iatrogenically injured, which make these techniques difficult or unfeasible. Familiarity with intraoperative salvage techniques in this setting is imperative. We present techniques for stabilizing the base of the thumb metacarpal when the FCR is deficient or injured.


Subject(s)
Arthroplasty/methods , Ligaments, Articular/surgery , Osteoarthritis/surgery , Plastic Surgery Procedures/methods , Tendons/surgery , Thumb/surgery , Female , Hand/diagnostic imaging , Humans , Middle Aged , Osteoarthritis/diagnostic imaging , Radiography , Suture Anchors
10.
J Hand Surg Am ; 37(10): 2168-73; quiz 2174, 2012 Oct.
Article in English | MEDLINE | ID: mdl-22960028

ABSTRACT

Perilunate dislocations and fracture dislocations are high-energy injuries that can result in pain, stiffness, weakness, or disability if inappropriately treated. Prompt recognition and surgical treatment with anatomic reduction of carpal malalignment improve the likelihood of optimal, long-term clinical success and patient satisfaction. The progressive development of radiographic evidence of arthrosis is common but has not been shown to consistently correlate with worse patient function and outcomes.


Subject(s)
Carpal Joints/surgery , Fractures, Bone/diagnosis , Fractures, Bone/surgery , Joint Dislocations/diagnosis , Joint Dislocations/surgery , Lunate Bone/surgery , Carpal Joints/injuries , Fracture Fixation, Internal/methods , Humans , Joint Instability/etiology , Joint Instability/surgery , Ligaments, Articular/injuries , Ligaments, Articular/surgery , Lunate Bone/injuries , Time-to-Treatment
11.
J Hand Surg Am ; 36(2): 259-64, 2011 Feb.
Article in English | MEDLINE | ID: mdl-21186088

ABSTRACT

PURPOSE: To review the rate of fusion, complications, and subjective outcome measures of proximal interphalangeal joint arthrodesis after failed implant arthroplasty. METHODS: We conducted a retrospective review identifying patients from 1990 to 2009 who underwent proximal interphalangeal joint arthrodesis for implant arthroplasty failure. All types of implants were included. We reviewed clinical notes and radiographs identifying patient history, implant type, revisions before arthrodesis, method of arthrodesis, rate of union, time to union, and complications. We used the Michigan Hand Outcomes Questionnaire to assess patients' function and perceived clinical outcome. RESULTS: A total of 13 joints in 8 patients (6 female, 2 male) identified with an average clinical follow-up of 6.5 years (range, 1.0-12.3 y) were available for study. The average time from joint replacement to salvage for all implant types was 9.3 years (range, 1.6-32.2 y). Eight of the 13 fingers achieved union. The average time to union was 5.8 months (range, 1-11 mo). Eight of 13 fingers underwent removal of K-wires, tension band, or both. Excluding hardware-related problems, there were 4 additional complications in 4 patients. CONCLUSIONS: Salvage of failed proximal interphalangeal joint arthroplasty remains a challenging clinical problem. Although achieving solid fusion with arthrodesis is not completely reliable or without complication, patients' subjective and functional outcomes demonstrate fair to good results. TYPE OF STUDY/LEVEL OF EVIDENCE: Therapeutic IV.


Subject(s)
Arthrodesis/methods , Arthroplasty, Replacement, Finger/adverse effects , Finger Joint/surgery , Salvage Therapy/methods , Adult , Aged , Arthritis/complications , Arthroplasty, Replacement, Finger/methods , Cohort Studies , Female , Finger Joint/diagnostic imaging , Finger Joint/physiopathology , Hand Deformities, Acquired/diagnostic imaging , Hand Deformities, Acquired/etiology , Hand Deformities, Acquired/surgery , Humans , Male , Middle Aged , Pain Measurement , Prosthesis Failure , Radiography , Range of Motion, Articular/physiology , Recovery of Function , Reoperation/methods , Retrospective Studies , Risk Assessment , Treatment Outcome
12.
Front Genet ; 11: 567969, 2020.
Article in English | MEDLINE | ID: mdl-33193660

ABSTRACT

Domestication to captive rearing conditions, along with targeted selective breeding have genetic consequences that vary from those in wild environments. Nile tilapia (Oreochromis niloticus) is one of the most translocated and farmed aquaculture species globally, farmed throughout Asia, North and South America, and its African native range. In Egypt, a breeding program established the Abbassa Strain of Nile tilapia (AS) in 2002 based on local broodstock sourced from the Nile River. The AS has been intensively selected for growth and has gone through genetic bottlenecks which have likely shifted levels and composition of genetic diversity within the strain. Consequently, there are questions on the possible genetic impact AS escapees may have on endemic populations of Nile tilapia. However, to date there have been no genetic studies comparing genetic changes in the domesticated AS to local wild populations. This study used 9,827 genome-wide SNPs to investigate population genetic structure and signatures of selection in the AS (generations 9-11) and eight wild Nile tilapia populations from Egypt. SNP analyses identified two major genetic clusters (captive and wild populations), with wild populations showing evidence of isolation-by-distance among the Nile Delta and upstream riverine populations. Between genetic clusters, approximately 6.9% of SNPs were identified as outliers with outliers identified on all 22 O. niloticus chromosomes. A lack of localized outlier clustering on the genome suggests that no genes of major effect were presently detected. The AS has retained high levels of genetic diversity (Ho_All = 0.21 ± 0.01; He_All = 0.23 ± 0.01) when compared to wild populations (Ho_All = 0.18 ± 0.01; He_All = 0.17 ± 0.01) after 11 years of domestication and selective breeding. Additionally, 565 SNPs were unique within the AS line. While these private SNPs may be due to domestication signals or founder effects, it is suspected that introgression with blue tilapia (Oreochromis aureus) has occurred. This study highlights the importance of understanding the effects of domestication in addition to wild population structure to inform future management and dissemination decisions. Furthermore, by conducting a baseline genetic study of wild populations prior to the dissemination of a domestic line, the effects of aquaculture on these populations can be monitored over time.

13.
J Cell Biol ; 160(4): 577-87, 2003 Feb 17.
Article in English | MEDLINE | ID: mdl-12591916

ABSTRACT

Caspase-directed apoptosis usually fragments cells, releasing nonfunctional, prothrombogenic, membrane-bound apoptotic bodies marked for rapid engulfment by macrophages. Blood platelets are functional anucleate cells generated by specialized fragmentation of their progenitors, megakaryocytes (MKs), but committed to a constitutive caspase-independent death. Constitutive formation of the proplatelet-bearing MK was recently reported to be caspase-dependent, apparently involving mitochondrial release of cytochrome c, a known pro-apoptogenic factor. We extend those studies and report that activation of caspases in MKs, either constitutively or after Fas ligation, yields platelets that are functionally responsive and evade immediate phagocytic clearance, and retain mitochondrial transmembrane potential until constitutive platelet death ensues. Furthermore, the exclusion from the platelet progeny of caspase-9 present in the progenitor accounts for failure of mitochondrial release of cytochrome c to activate caspase-3 during platelet death. Thus, progenitor cell death by apoptosis can result in birth of multiple functional anucleate daughter cells.


Subject(s)
Apoptosis/physiology , Blood Platelets/physiology , Caspases/metabolism , Megakaryocytes/physiology , Amino Acid Chloromethyl Ketones/metabolism , Animals , Apoptotic Protease-Activating Factor 1 , Bone and Bones/cytology , Cell Line , Enzyme Activation , Enzyme Inhibitors/metabolism , Flow Cytometry , Fluorescent Dyes/metabolism , Humans , Ligands , Macrophages/metabolism , Male , Megakaryocytes/ultrastructure , Membrane Potentials/physiology , Mice , Middle Aged , Mitochondria/metabolism , Proteins/metabolism , fas Receptor/metabolism
14.
Cell Biochem Funct ; 27(1): 23-9, 2009 Jan.
Article in English | MEDLINE | ID: mdl-19107876

ABSTRACT

The goal of this study was to assess the effect of the addition of TGFbeta(3), alone or in combination with loading, on the survival of osteocytes in 3D human explant cancellous bone during long-term culture in an ex vivo loading bioreactor. Human cancellous bone explants were cultured for up to 14 days with or without TGFbeta(3) (15 ng ml(-1)) and with or without loading (300 cycles, at 1 Hz, producing 4000 microstrain). Bone core response was visualized using undecalcified histology with morphological methods after embedding with Technovit 9100 New resin. Histological examination revealed normal gross level bone structure with or without the application of load or the addition of TGFbeta(3). The viability of the osteocytes within the bone was assessed by lactate dehydrogenase (LDH) activity. We demonstrate that this ex vivo loading bioreactor is able to maintain a high percentage (over 50%) of viable osteocytes throughout the bone explants after 14 days in ex vivo culture. Further to this, the combination of daily loading and TGFbeta(3) administration produced superior osteocyte survival at the core centres when compared to loading or TGFbeta alone.


Subject(s)
Femur Head/enzymology , L-Lactate Dehydrogenase/metabolism , Osteocytes/enzymology , Stress, Physiological/drug effects , Transforming Growth Factor beta3/pharmacology , Bioreactors , Cell Survival/drug effects , Femur Head/cytology , Humans , Osteocytes/cytology , Stress, Physiological/physiology , Time Factors , Tissue Culture Techniques , Weight-Bearing/physiology
15.
BMC Gastroenterol ; 8: 8, 2008 Mar 01.
Article in English | MEDLINE | ID: mdl-18312680

ABSTRACT

BACKGROUND: Bowel symptoms are considered indicators of the presence of colorectal cancer and other bowel diseases. Self administered questionnaires that elicit information about lower bowel symptoms have not been assessed for reliability, although this has been done for upper bowel symptoms. Our aim was to develop a self administered questionnaire for eliciting the presence, nature and severity of lower bowel symptoms potentially related to colorectal cancer, and assess its reliability. METHODS: Immediately before consulting a gastroenterologist or colorectal surgeon, 263 patients likely to have a colonoscopy completed the questionnaire. Reliability was assessed in two ways: by assessing agreement between patient responses and (a) responses given by the doctor at the consultation; and (b) responses given by patients two weeks later. RESULTS: There was more than 75% agreement for 78% of the questions for the patient-doctor comparison and for 92% of the questions for the patient-patient comparison. Agreement for the length of time a symptom was present, its severity, duration, frequency of occurrence and whether or not medical consultation had been sought, all had agreement of greater than 70%. Over all questions, the chance corrected agreement for the patient-doctor comparison had a median kappa of 65% (which represents substantial agreement), interquartile range 57-72%. The patient-patient comparison also showed substantial agreement with a median kappa of 75%, interquartile range 68-81%. CONCLUSION: This self administered questionnaire about lower bowel symptoms is a useful way of eliciting details of bowel symptoms. It is a reliable instrument that is acceptable to patients and easily completed. Its use could guide the clinical consultation, allowing a more efficient, comprehensive and useful interaction, ensuring that all symptoms are assessed. It will also be a useful tool in research studies on bowel symptoms and their predictive value for colorectal cancer and other diseases. Studies assessing whether bowel symptoms predict the presence of colorectal cancer should provide estimates of the reliability of the symptom elicitation.


Subject(s)
Intestinal Diseases/diagnosis , Surveys and Questionnaires , Abdominal Pain , Adult , Aged , Aged, 80 and over , Colorectal Neoplasms/diagnosis , Defecation , Female , Gastrointestinal Hemorrhage , Humans , Male , Middle Aged , Reproducibility of Results , Self-Assessment
16.
Front Genet ; 9: 693, 2018.
Article in English | MEDLINE | ID: mdl-30728827

ABSTRACT

Within aquaculture industries, selection based on genomic information (genomic selection) has the profound potential to change genetic improvement programs and production systems. Genomic selection exploits the use of realized genomic relationships among individuals and information from genome-wide markers in close linkage disequilibrium with genes of biological and economic importance. We discuss the technical advances, practical requirements, and commercial applications that have made genomic selection feasible in a range of aquaculture industries, with a particular focus on molluscs (pearl oysters, Pinctada maxima) and marine shrimp (Litopenaeus vannamei and Penaeus monodon). The use of low-cost genome sequencing has enabled cost-effective genotyping on a large scale and is of particular value for species without a reference genome or access to commercial genotyping arrays. We highlight the pitfalls and offer the solutions to the genotyping by sequencing approach and the building of appropriate genetic resources to undertake genomic selection from first-hand experience. We describe the potential to capture large-scale commercial phenotypes based on image analysis and artificial intelligence through machine learning, as inputs for calculation of genomic breeding values. The application of genomic selection over traditional aquatic breeding programs offers significant advantages through being able to accurately predict complex polygenic traits including disease resistance; increasing rates of genetic gain; minimizing inbreeding; and negating potential limiting effects of genotype by environment interactions. Further practical advantages of genomic selection through the use of large-scale communal mating and rearing systems are highlighted, as well as presenting rate-limiting steps that impact on attaining maximum benefits from adopting genomic selection. Genomic selection is now at the tipping point where commercial applications can be readily adopted and offer significant short- and long-term solutions to sustainable and profitable aquaculture industries.

17.
Front Genet ; 9: 282, 2018.
Article in English | MEDLINE | ID: mdl-30123237

ABSTRACT

Elucidating the underlying genetic drivers of production traits in agricultural and aquaculture species is critical to efforts to maximize farming efficiency. "Omics" based methods (i.e., transcriptomics, genomics, proteomics, and metabolomics) are increasingly being applied to gain unprecedented insight into the biology of many aquaculture species. While the culture of penaeid shrimp has increased markedly, the industry continues to be impeded in many regards by disease, reproductive dysfunction, and a poor understanding of production traits. Extensive effort has been, and continues to be, applied to develop critical genomic resources for many commercially important penaeids. However, the industry application of these genomic resources, and the translation of the knowledge derived from "omics" studies has not yet been completely realized. Integration between the multiple "omics" resources now available (i.e., genome assemblies, transcriptomes, linkage maps, optical maps, and proteomes) will prove critical to unlocking the full utility of these otherwise independently developed and isolated resources. Furthermore, emerging "omics" based techniques are now available to address longstanding issues with completing keystone genome assemblies (e.g., through long-read sequencing), and can provide cost-effective industrial scale genotyping tools (e.g., through low density SNP chips and genotype-by-sequencing) to undertake advanced selective breeding programs (i.e., genomic selection) and powerful genome-wide association studies. In particular, this review highlights the status, utility and suggested path forward for continued development, and improved use of "omics" resources in penaeid aquaculture.

18.
Endocrinology ; 148(5): 2553-62, 2007 May.
Article in English | MEDLINE | ID: mdl-17317771

ABSTRACT

Because a lack of mechanical information favors the development of adipocytes at the expense of osteoblasts, we hypothesized that the peroxisome proliferator-activated receptor gamma (PPARgamma)-dependent balance between osteoblasts and adipocytes is affected by mechanical stimuli. We tested the robustness of this hypothesis in in vivo rodent osteogenic exercise, in vitro cyclic loading of cancellous haversian bone samples, and cyclic stretching of primary stromal and C3H10T1/2 cells. We found that running rats exhibit a decreased marrow fat volume associated with an increased bone formation, presumably through recruitment of osteoprogenitors. In the tissue culture model and primary stromal cells, cyclic loading induced higher Runx2 and lower PPARgamma2 protein levels. Given the proadipocytic and antiosteoblastic activities of PPARgamma, we studied the effects of cyclic stretching in C3H10T1/2 cells, treated either with the PPARgamma activator, Rosiglitazone, or with GW9662, a potent antagonist of PPARgamma. We found, through both cytochemistry and analysis of lineage marker expression, that under Roziglitazone cyclic stretch partially overcomes the induction of adipogenesis and is still able to favor osteoblast differentiation. Conversely, cyclic stretch has additive effects with GW9662 in inducing osteoblastogenesis. In conclusion, we provide evidence that mechanical stimuli are potential PPARgamma modulators counteracting adipocyte differentiation and inhibition of osteoblastogenesis.


Subject(s)
Adipogenesis/physiology , Bone Marrow Cells/cytology , Bone Marrow Cells/physiology , Osteoblasts/cytology , Osteoblasts/physiology , PPAR gamma/metabolism , Adipocytes/cytology , Adipocytes/physiology , Animals , Cattle , Cell Differentiation/physiology , Cell Line, Transformed , Core Binding Factor Alpha 1 Subunit/genetics , Core Binding Factor Alpha 1 Subunit/metabolism , Down-Regulation/physiology , Male , Mesenchymal Stem Cells/cytology , Mesenchymal Stem Cells/physiology , PPAR gamma/genetics , Physical Conditioning, Animal , Rats , Rats, Wistar , Stress, Mechanical , Stromal Cells/cytology , Stromal Cells/physiology , Tibia/cytology , Tibia/physiology
19.
Arthroscopy ; 23(4): 400-4, 2007 Apr.
Article in English | MEDLINE | ID: mdl-17418333

ABSTRACT

PURPOSE: We tested the hypothesis that the preimplantation mechanical properties of BioCleanse-treated bone-patellar tendon-bone (BPTB) allografts are not significantly different from those of untreated specimens. METHODS: For this controlled laboratory study, specimens were harvested as central third or hemi-BPTB units from both knees of 17 cadaveric tissue donors (11 men and 6 women) aged 19 to 88 years. Donor-matched specimens (20 per group) were randomly assigned to either BioCleanse-treated or untreated control groups. Specimens were subjected to 25 minutes of pretensioning at 89 N and then cyclically loaded under longitudinal tension between 50 N and 250 N for 1,000 cycles at 1 Hz, followed by ramp to failure at 50 mm/min. RESULTS: No statistically significant difference was found between untreated and BioCleanse-treated specimens in stiffness (235.3 +/- 37.6 N/mm v 222.3 +/- 53.4 N/mm, P = .37), cyclic creep (0.38 +/- 0.42 mm v 0.40 +/- 0.26 mm, P = .81), maximum force (1,685.7 +/- 471.6 N v 1,807.0 +/- 657.8 N, P = .47), or ultimate stress (29.0 +/- 9.8 MPa v 29.0 +/- 12.8 MPa, P = .98). CONCLUSIONS: The preimplantation mechanical properties of BPTB allografts treated with BioCleanse are not significantly different from those of untreated controls. CLINICAL RELEVANCE: This laboratory study compares the biomechanical properties of chemically treated allografts, which are currently being used in anterior cruciate ligament reconstruction, with those of nontreated fresh-frozen allografts.


Subject(s)
Patellar Ligament/pathology , Patellar Ligament/transplantation , Sterilization/methods , Adult , Age Factors , Aged , Aged, 80 and over , Cadaver , Female , Humans , Male , Materials Testing , Middle Aged , Probability , Random Allocation , Reference Values , Sensitivity and Specificity , Sex Factors , Stress, Mechanical , Transplantation Conditioning/methods , Transplantation, Homologous
20.
Med Teach ; 29(2-3): 264-6, 2007 Mar.
Article in English | MEDLINE | ID: mdl-17701645

ABSTRACT

There is much room for innovation in teaching medical students professionalism. The goal of this exercise was to enhance first-year Gross Anatomy students' understanding of professionalism, including the attributes of confidentiality, respectful behavior and humanism in medicine through a video interview with a donor family member. Survey results demonstrated that students generally agreed that the video helped them better understand professionalism in the context of the gross anatomy laboratory and gave them a deeper respect for donors. Most students strongly agreed that future medical students would benefit from viewing this video interview.


Subject(s)
Anatomy/education , Education, Medical, Undergraduate/methods , Interviews as Topic , Professional Competence , Teaching , Video Recording , Attitude of Health Personnel , Confidentiality , Family , Humans , Students, Medical/psychology , Tissue Donors
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