The Evolution of Extracellular Matrix

We present a perspective on the molecular evolution of the extracellular matrix (ECM) in metazoa that draws on research publications and data from sequenced genomes and expressed sequence tag libraries. ECM components do not function in isolation, and the biological ECM system or “adhesome” also depends on posttranslational processing enzymes, cell surface receptors, and extracellular proteases. We focus principally on the adhesome of internal tissues and discuss its origins at the dawn of the metazoa and the expansion of complexity that occurred in the chordate lineage. The analyses demonstrate very high conservation of a core adhesome that apparently evolved in a major wave of innovation in conjunction with the origin of metazoa. Integrin, CD36, and certain domains predate the metazoa, and some ECM-related proteins are identified in choanoflagellates as predicted sequences. Modern deuterostomes and vertebrates have many novelties and elaborations of ECM as a result of domain shuffling, domain innovations and gene family expansions. Knowledge of the evolution of metazoan ECM is important for understanding how it is built as a system, its roles in normal tissues and disease processes, and has relevance for tissue engineering, the development of artificial organs, and the goals of synthetic biology

Large-Scale Gene-Centric Meta-Analysis across 39 Studies Identifies Type 2 Diabetes Loci

To identify genetic factors contributing to type 2 diabetes (T2D), we performed large-scale meta-analyses by using a custom similar to 50,000 SNP genotyping array (the ITMAT-Broad-CARe array) with similar to 2000 candidate genes in 39 multiethnic population-based studies, case-control studies, and clinical trials totaling 17,418 cases and 70,298 controls. First, meta-analysis of 25 studies comprising 14,073 cases and 57,489 controls of European descent confirmed eight established T2D loci at genome-wide significance. In silico follow-up analysis of putative association signals found in independent genome-wide association studies (including 8,130 cases and 38,987 controls) performed by the DIAGRAM consortium identified a T2D locus at genome-wide significance (GATAD2A/CILP2/PBX4; p = 5.7 x 10(-9)) and two loci exceeding study-wide significance (SREBF1, and TH/INS; p <2.4 x 10(-6)). Second, meta-analyses of 1,986 cases and 7,695 controls from eight African-American studies identified study-wide-significant (p = 2.4 x 10(-7)) variants in HMGA2 and replicated variants in TCF7L2 (p = 5.1 x 10(-15)). Third, conditional analysis revealed multiple known and novel independent signals within five T2D-associated genes in samples of European ancestry and within HMGA2 in African-American samples. Fourth, a multiethnic meta-analysis of all 39 studies identified T2D-associated variants in BCL2 (p = 2.1 x 10(-8)). Finally, a composite genetic score of SNPs from new and established T2D signals was significantly associated with increased risk of diabetes in African-American, Hispanic, and Asian populations. In summary, large-scale meta-analysis involving a dense gene-centric approach has uncovered additional loci and variants that contribute to T2D risk and suggests substantial overlap of T2D association signals across multiple ethnic groups

Loci influencing blood pressure identified using a cardiovascular gene-centric array

Blood pressure (BP) is a heritable determinant of risk for cardiovascular disease (CVD). To investigate genetic associations with systolic BP (SBP), diastolic BP (DBP), mean arterial pressure (MAP) and pulse pressure (PP), we genotyped 50 000 single-nucleotide polymorphisms (SNPs) that capture variation in 2100 candidate genes for cardiovascular phenotypes in 61 619 individuals of European ancestry from cohort studies in the USA and Europe. We identified novel associations between rs347591 and SBP (chromosome 3p25.3, in an intron of HRH1) and between rs2169137 and DBP (chromosome1q32.1 in an intron of MDM4) and between rs2014408 and SBP (chromosome 11p15 in an intron of SOX6), previously reported to be associated with MAP. We also confirmed 10 previously known loci associated with SBP, DBP, MAP or PP (ADRB1, ATP2B1, SH2B3/ATXN2, CSK, CYP17A1, FURIN, HFE, LSP1, MTHFR, SOX6) at array-wide significance (P 2.4 10(6)). We then replicated these associations in an independent set of 65 886 individuals of European ancestry. The findings from expression QTL (eQTL) analysis showed associations of SNPs in the MDM4 region with MDM4 expression. We did not find any evidence of association of the two novel SNPs in MDM4 and HRH1 with sequelae of high BP including coronary artery disease (CAD), left ventricular hypertrophy (LVH) or stroke. In summary, we identified two novel loci associated with BP and confirmed multiple previously reported associations. Our findings extend our understanding of genes involved in BP regulation, some of which may eventually provide new targets for therapeutic intervention.</p

An overview of treatment approaches for chronic pain management

Pain which persists after healing is expected to have taken place, or which exists in the absence of tissue damage, is termed chronic pain. By definition chronic pain cannot be treated and cured in the conventional biomedical sense; rather, the patient who is suffering from the pain must be given the tools with which their long-term pain can be managed to an acceptable level. This article will provide an overview of treatment approaches available for the management of persistent non-malignant pain. As well as attempting to provide relief from the physical aspects of pain through the judicious use of analgesics, interventions, stimulations, and irritations, it is important to pay equal attention to the psychosocial complaints which almost always accompany long-term pain. The pain clinic offers a biopsychosocial approach to treatment with the multidisciplinary pain management programme; encouraging patients to take control of their pain problem and lead a fulfilling life in spite of the pain. © 2016 Springer-Verlag Berlin Heidelber

Integration of molecular genetic information into the NCCCWA selective breeding program for rainbow trout

The USDA/ARS National Center for Cool and Cold Water Aquaculture (NCCCWA) in Leetown, West Virginia, is working to integrate molecular genetic technologies into a selective breeding program aimed at the genetic improvement of rainbow trout for aquaculture production efficien- cy. Our multidisciplinary approach aims to incorporate genome information with respect to dis- ease resistance and stress, growth, and reproductive physiology into our selective breeding pro- gram. Selective breeding is based on the hypothesis that sufficient genetic variation exists in broodstock to realize genetic improvement through contributions of superior performing germplasm to future generations. Our associated goal is to develop and transfer improved germplasm and technologies to the aquaculture industry. Our approach to implementing molec- ular information into our breeding program is outlined under three objectives: (a) development of a genetic map to reveal chromosomal locations affecting traits associated with aquaculture pro- duction, (b) use of a candidate gene approach to identify and characterize genes affecting impor- tant aquaculture production traits through functional genomic technologies, and (c) development of bioinformatic strategies to implement genetic mapping and functional genomic information into a selective breeding program

Genetics and genomics - integration of molecular genetics into a breeding program for rainbow trout

At the National Center for Cool and Cold Water Aquaculture (US Department of Agriculture, Ag. Research Service) in Leetown, WV, we have a broodstock development program now entering the second generation of family-based selective breeding using expected breeding values (EBVs). Our major breeding objectives are faster growth and resistance to Flavobacterium psy- chrophilum, the causative agent of bacterial coldwater disease. For these traits we have devel- oped assays to evaluate phenotypic performance. In addition to our breeding program, we are participating in an international collaboration to develop a microsatellite marker linkage map for the rainbow trout with the intent of identifying quantitative trait loci (QTL) and using them in mark- er (MAS) or gene-assisted (GAS) selection. There are several possible approaches with regard to the types and numbers of markers to develop and the strategies and methods for implement- ing the markers in a selective breeding program. This paper describes the choices we made con- cerning QTL identification for traits of high, low, and unknown degrees of heritability. These traits are plasma cortisol response to a crowding stress (h2 = 0.4), feed intake (h2 = 0.1) and resis- tance to F. psychrophilum (0.3<h2<0.4). In order to identify QTL in a relevant commercially important rainbow trout line, we are making crosses from within our resource population. The development of research family crosses, choice of markers for genome scanning, and planned steps to implementation of these results are described