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  1. Article ; Online: DNA typing of birch: Development of a forensic STR system for Betula pendula and Betula pubescens.

    Wesselink, Monique / Dragutinović, Aleksandar / Noordhoek, Jeroen W / Bergwerff, Leonie / Kuiper, Irene

    Forensic science international. Genetics

    2018  Volume 35, Page(s) 70–81

    Abstract: Although botanical trace evidence is often encountered in case investigations, the utilization of such traces in forensic investigations is still limited. Development of a forensic STR system for the two species of Betula (birch) indigenous to and ... ...

    Abstract Although botanical trace evidence is often encountered in case investigations, the utilization of such traces in forensic investigations is still limited. Development of a forensic STR system for the two species of Betula (birch) indigenous to and abundant in North West Europe is a step in enhancing the applicability of traces from these species. We describe six microsatellite markers developed for birch species in detail, including repeat structure, and we propose a nomenclature for the encountered alleles. To assess the population characteristics, the genetic composition of wild, planted and intermediate populations of Betula pendula (a diploid species) and Betula pubescens (a tetraploid species) were investigated. The genetic differences between these two species were larger than the differences between populations of one species, even when both species co-occurred at one location. Therefore allele frequencies were estimated for both species separately. General, conservative random match probabilities were estimated for wild trees based on these allele frequencies (5∙10
    MeSH term(s) Betula/genetics ; DNA Fingerprinting ; Europe ; Forensic Genetics ; Gene Frequency ; Microsatellite Repeats ; Multiplex Polymerase Chain Reaction
    Language English
    Publishing date 2018-04-07
    Publishing country Netherlands
    Document type Journal Article
    ZDB-ID 2493339-9
    ISSN 1878-0326 ; 1872-4973
    ISSN (online) 1878-0326
    ISSN 1872-4973
    DOI 10.1016/j.fsigen.2018.04.001
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article: Exploring DNA methylation patterns in copper exposed Folsomia candida and Enchytraeus crypticus

    Noordhoek, Jeroen W / Cornelis A.M. van Gestel / Dick Roelofs / Janine Mariën / Jasper T. Koning / Jorke H. Kamstra / Mónica J.B. Amorim / Nico M. van Straalen

    Pedobiologia. 2018 Jan., v. 66

    2018  

    Abstract: Accumulating evidence shows that epigenetics-mediated phenotypic plasticity plays a role in an organism’s ability to deal with environmental stress. However, to date, the role of epigenetic modifications in response to stress is hardly investigated in ... ...

    Abstract Accumulating evidence shows that epigenetics-mediated phenotypic plasticity plays a role in an organism’s ability to deal with environmental stress. However, to date, the role of epigenetic modifications in response to stress is hardly investigated in soil invertebrates. The main objective of this proof of principle study was to explore whether total cytosine and locus-specific CpG methylation are present in two important ecotoxicological model organisms, the springtail Folsomia candida and the potworm Enchytraeus crypticus, and if so, whether methylation patterns might change with increased toxicant exposure. LC–MS/MS analyses and bisulfite sequencing were performed to identify the CpG methylation state of the organisms. We show here, for the first time, a total level of 1.4% 5-methyl cytosine methylation in the genome of E. crypticus, and an absence of both total cytosine and locus-specific CpG methylation in F. candida. In E. crypticus, methylation of CpG sites was observed in the coding sequence (CDS) of the housekeeping gene Elongation Factor 1α, while the CDS of the stress inducible Heat Shock Protein 70 gene almost lacked methylation. This confirms previous observations that DNA methylation differs between housekeeping and stress-inducible genes in invertebrates. DNA methylation patterns in E. crypticus were not affected by exposure to copper (II) sulfate pentahydrate (CuSO4·5H2O) mixed in with LUFA 2.2 soil at sublethal effect concentrations that decreased reproduction by 10%, 20% and 50%. Although, differences in CpG methylation patterns between specific loci suggest a functional role for DNA methylation in E. crypticus, genome-wide bisulfite sequencing is needed to verify whether environmental stress affects this epigenetic hallmark.
    Keywords copper ; copper sulfate ; cytosine ; DNA methylation ; ecotoxicology ; Enchytraeus ; epigenetics ; essential genes ; Folsomia candida ; heat-shock protein 70 ; loci ; models ; phenotypic plasticity ; reproduction ; soil ; soil invertebrates ; stress response ; sublethal effects
    Language English
    Dates of publication 2018-01
    Size p. 52-57.
    Publishing place Elsevier GmbH
    Document type Article
    ZDB-ID 207680-9
    ISSN 1873-1511 ; 0031-4056
    ISSN (online) 1873-1511
    ISSN 0031-4056
    DOI 10.1016/j.pedobi.2017.10.001
    Database NAL-Catalogue (AGRICOLA)

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