Fixed-bin analysis for statistical evaluation of continuous distributions of allelic data from VNTR loci, for use in forensic comparisons.

The detection of DNA polymorphisms by RFLP analysis is having a major impact on identity testing in forensic science. At present, this approach is the best effort a forensic scientist can make to exclude an individual who has been falsely associated with an evidentiary sample found at a crime scene. When an analysis fails to exclude a suspect as a potential contributor of an evidentiary sample, a means should be provided to assess suitable weight to the putative match. Most important, the statistical analysis should not place undue weight on a genetic profile derived from an unknown sample that is attributed to an accused individual. The method must allow for limitations in conventional agarose-submarine-gel electrophoresis and Southern blotting procedure, limited sample population data, possible subpopulation differences, and potential sampling error. A conservative statistical method was developed based on arbitrarily defined fixed bins. This approach permits classification of continuous allelic data, provides for a simple and portable data-base system, and is unlikely to underestimate the frequency of occurrence of a set of alleles. This will help ensure that undue weight is not placed on a sample attributed to an accused individual.     

The probability of matching genetic markers in different samples

Hypervariable DNA polymorphisms in humans have been introduced in forensic science for the exclusion of innocent persons, and possibily for the identification of guilty ones, through mismatches and matches of DNA patterns in incriminating samples. Under the assumption of random mating and linkage equilibrium, it is observed that the probability of mismatch, then of exclusion of innocent persons, is very high. The probability of a match on the contrary may be very low, particularly when several hypervariable DNA polymorphisms are used for the DNA pattern. When a match is observed, and the probability of match is calculated, and it is lower than one in five billions, this might be considered incriminating by a judge. It is concluded that an innocent person has all advantages in submitting to the DNA fingerprinting test.     

Applications of the Dirichlet distribution to forensic match probabilities

The Dirichlet distribution provides a convenient conjugate prior for Bayesian analyses involving multinomial proportions. In particular, allele frequency estimation can be carried out with a Dirichlet prior. If data from several distinct populations are available, then the parameters characterizing the Dirichlet prior can be estimated by maximum likelihood and then used for allele frequency estimation in each of the separate populations. This empirical Bayes procedure tends to moderate extreme multinomial estimates based on sample proportions. The Dirichlet distribution can also be employed to model the contributions from different ancestral populations in computing forensic match probabilities. If the ancestral populations are in genetic equilibrium, then the product rule for computing match probabilities is valid conditional on the ancestral contributions to a typical person of the reference population. This fact facilitates computation of match probabilities and tight upper bounds to match probabilities.Editor's commentsThe author continues the formal Bayesian analysis introduced by Gjertson & Morris in this voluem. He invokes Dirichlet distributions, and so brings rigor to the discussion of the effects of population structure on match probabilities. The increased computational burden this approach entails should not be regarded as a hindrance.     

DNA evidence: Wrong answers or wrong questions?

Much of the controversy over DNA evidence is due to the way in which forensic scientific evidence has classically been presented. The orthodox approach is to consider whether two samples match according to a predetermined criterion. If they do, the fact of match is reported along with an estimate of the frequency of the characteristics. This method fails to address the questions raised in court cases, diverts argument into irrelevancies and stultifies research. Presentation of evidence in the form of likelihood ratios, on the other hand, forces the witness to answer the questions the court is interested in and makes apparent lines of research required to increase our understanding.Editor's commentsThe authors reiterate the crucial role of likelihood ratios in presenting forensic evidence, and so continue the crusade mounted by Evett, Buckleton and others.     

Forensic culture as epistemic culture: The sociology of forensic science

This paper explores whether we can interpret the notion of ‘forensic culture’ as something akin to what Knorr-Cetina called an ‘epistemic culture’. Can we speak of a ‘forensic culture’, and, if so, how is it similar to, or different from, other epistemic cultures that exist in what is conventionally called ‘science’? This question has important policy implications given the National Academy Science’s (NAS) recent identification of ‘culture’ as one of the problems at the root of what it identified as ‘serious deficiencies’ in U.S. forensic science and ‘scientific culture’ as an antidote to those problems. Finding the NAS’s characterisation of ‘scientific culture’ overly general and naïve, this paper offers a preliminary exploration of what might be called a ‘forensic culture’. Specifically, the paper explores the way in which few of the empirical findings accumulated by sociologists of science about research science seem to apply to forensic science. Instead, forensic science seems to have developed a distinct culture for which a sociological analysis will require new explanatory tools. Faithful sociological analysis of ‘forensic culture’ will be a necessary prerequisite for the kind of culture change prescribed by external reformist bodies like the NAS.     

土壤微生物在法庭科学领域中的应用研究进展

土壤物证在法庭科学领域的应用由来已久,主要是基于其外观、颜色、元素组成、矿物学等理化特性及土壤夹杂物等的比对检验。近年来,随着高通量测序技术的发展,法医土壤微生物检验不再完全依赖于传统培养技术,而是直接挖掘分析土壤中的全部微生物DNA信息,并将这些信息应用于法庭科学领域内的样本比对、土壤物证区域环境推断和溯源研究等,从而凸显出土壤微生物物证在案件侦查和法庭诉讼方面的巨大价值和应用潜力。本文通过综述国内外有关法医土壤微生物研究的最新进展,指出了土壤微生物多样性检验在法庭科学领域的应用潜力,分析了法医土壤微生物群落多样性的影响因素,最后探讨了法医土壤微生物研究中存在的问题和未来的发展方向。     

Glottal fry and voice disguise: a case study in forensic phonetics

In recent legal proceedings, forensic phoneticians were called upon to analyse a tape-recorded message intended for the blackmail of a bank manager following the kidnap of his wife. The brief was to establish the likelihood that the tape recording may have been made by any one of three suspects, samples of whose speech were also made available. The comparison was greatly complicated by voice disguise employed by the speaker who recorded the kidnap tape. This disguise comprised a form of phonation described phonetically as ‘glottal fry’ or vocal ‘creak’. This form of phonation occurs normally in normal speech, but it has received most attention in relation to voice pathologies. On the other hand there are few references to its use as a form of voice disguise. This paper discusses the nature of the creak, and examines its effectiveness as voice disguise. In addition, a method is described for speaker identification regardless of the disguise. Results indicate that trained listeners without repeated presentations or instrumentation are able to match speakers with 65% accuracy when one voice is creaky, compared with 90% accuracy for undisguised voices. Using a Euclidean metric to compare the power spectra of the [s] sound, we find that creaky disguised voices may be correctly matched with the undisguised voice of the same speaker (9 distracters) in 5 cases out of 10. However, when the computer's task is made more similar to the perceptual task, selecting one speaker out of two, it achieves an accuracy of 81%. Implications for forensic phonetics are discussed.     

Modeling of biofilm reactors with consecutive reactions

Modeling of biofilm reactors has been carried out by several authors. Most of the models use first-order or zero-order kinetics, because of the simplicity of the solution of the mathematical problem. However, the reaction kinetics for many practical situations is a non-linear Monod kinetics, which requires numerical solutions. This paper deals with the modeling of biofilm reactors and effectiveness factor calculations for a biofilm particle with Monod kinetics and two consecutive reactions. The model is applied to biological denitrification in a fluidized bed bioreactor, in which the liquid phase is assumed to be in plug flow. Effectiveness factors of biofilm are numerically calculated by solving the system of ODES by orthogonal collocation. Axial concentration profiles of nitrate and nitrite species are calculated and compared with experimental results.     

A method for quantifying differentiation between populations at multi-allelic loci and its implications for investigating identity and paternity

A method is proposed for allowing for the effects of population differentiation, and other factors, in forensic inference based on DNA profiles. Much current forensic practice ignores, for example, the effects of coancestry and inappropriate databases and is consequently systematically biased against defendants. Problems with the ‘product rule’ for forensic identification have been highlighted by several authors, but important aspects of the problems are not widely appreciated. This arises in part because the match probability has often been confused with the relative frequency of the profile. Further, the analogous problems in paternity cases have received little attention. The proposed method is derived under general assumptions about the underlying population genetic processes. Probabilities relevant to forensic inference are expressed in terms of a single parameter whose values can be chosen to reflect the specific circumstances. The method is currently used in some UK courts and has important advantages over the ‘Ceiling Principle’ method, which has been criticized on a number of grounds. Editor's comments The authors' work offers a sound approach to accommodating the effects of population structure, based on use of Wright'sF _ST . Their equations 1 and 2 are very convenient, and are good approximations to the exact results given by Weir (1994). As they point out, good estimates ofF _ST are needed. The comments about the ‘generally mixed’ results of independence tests may be met, in part, by the paper of Maiste and Weir in this volume. The authors cite Kraneet al. (1992) but had not seen the subsequent rebuttal by Budowleet al. (1994). The work of Wallet al. (1993) contained errors, as noted in Greenhalghet al. (1994). An erratum to this article is available at .     

Karl Popper,Forensic Science,and Nested Codes

This paper utilizes the framework of Karl Popper’s 3-world ontology to make the case that forensic science is a specialized coding system that establishes meaningful connections between the world of biology (world 1) and the world of human society (world 3). Forensic science is a cross-disciplinary endeavor that uses scientific methods to determine what transpired in a crime so the legal system can determine how to prosecute the offender(s). On a Popperian analysis of forensic science, world 1 consists of evidence gathered at the crime scene, which enables investigators to develop a detailed reconstruction of the incident for consideration under the legal and ethical codes of society, which are products of world 3. Understanding forensic science in this way serves two purposes: first, it extends Marcello Barbieri’s code biology into the realm of philosophical considerations in science, law and ethics; and second, it situates forensic science within the larger context of debates in contemporary philosophy of science.     

Forensic DNA analysis for animal protection and biodiversity conservation: A review

The use of DNA analysis in forensic investigations into animal persecution and biodiversity conservation is now commonplace and crimes such as illegal collection/smuggling, poaching, and illegal trade of protected species are increasingly being investigated using DNA based evidence in many countries. Using DNA analysis, it is possible to identify the species and geographical origin (i.e. population) of a forensic sample, and to also individualise the sample with high levels of probability. Despite extensive literature in animal species, there is unfortunately a serious lack of information on plant species, with only a handful of recent studies. In this review, I detail the applications and diverse forensic investigations that have been carried out to date whilst also highlighting recent developmental studies which offer forensic potential for many species in the future.     

The use of Markovian metapopulation models: a comparison of three methods reducing the dimensionality of transition matrices

The use of Markovian models is an established way for deriving the complete distribution of the size of a population and the probability of extinction. However, computationally impractical transition matrices frequently result if this mathematical approach is applied to natural populations. Binning, or aggregating population sizes, has been used to permit a reduction in the dimensionality of matrices. Here, we present three deterministic binning methods and study the errors due to binning for a metapopulation model. Our results indicate that estimation errors of the investigated methods are not consistent and one cannot make generalizations about the quality of a method. For some compared output variables of populations studied, binning methods that caused a strong reduction in dimensionality of matrices resulted in better estimations than methods that produced a weaker reduction. The main problem with deterministic binning methods is that they do not properly take into account the stochastic population process itself. Straightforward usage of binning methods may lead to substantial errors in population-dynamical predictions.     

MICROSATELIGHT--pipeline to expedite microsatellite analysis

MICROSATELIGHT is a Perl/Tk pipeline with a graphical user interface that facilitates several tasks when scoring microsatellites. It implements new subroutines in R and PERL and takes advantage of features provided by previously developed freeware. MICROSATELIGHT takes raw genotype data and automates the peak identification through PeakScanner. The PeakSelect subroutine assigns peaks to different microsatellite markers according to their multiplex group, fluorochrome type, and size range. After peak selection, binning of alleles can be carried out 1) automatically through AlleloBin or 2) by manual bin definition through Binator. In both cases, several features for quality checking and further binning improvement are provided. The genotype table can then be converted into input files for several population genetics programs through CREATE. Finally, Hardy-Weinberg equilibrium tests and confidence intervals for null allele frequency can be obtained through GENEPOP. MICROSATELIGHT is the only freely available public-domain software that facilitates full multiplex microsatellite scoring, from electropherogram files to user-defined text files to be used with population genetics software. MICROSATELIGHT has been created for the Windows XP operating system and has been successfully tested under Windows 7. It is available at http://sourceforge.net/projects/microsatelight/.     

Role of short tandem repeat DNA in forensic casework in the UK--past, present, and future perspectives

The analysis of short tandem repeat (STR) DNA sequences is of fundamental importance to forensic science because they have become the recognized standard in constructing national public databases. Consequently, considerable effort has been expended in developing multiplexed (one tube) reactions that analyze several loci in combination. The implementation of STRs in casework cannot take place without a full understanding of the systems used. The purpose of validation is to characterize multiplexes when one is challenged with forensic samples. For example, mixtures are often encountered that may be particularly difficult to interpret against a background of allelic artifacts. By increasing the number of PCR amplification cycles, it is possible to dramatically boost the sensitivity of the system so that just a handful of cells may be successfully analyzed. However, interpretation is much more complex because the origin of DNA profiles may be less certain and complicated by issues such as contamination, the potential for innocent transfer and a predominance of mixtures. This review provides a brief historical background of the development of STRs in forensic casework that culminated in the creation of national DNA databases. The development of guidelines to interpret complex DNA profiles, such as mixtures, is outlined. Finally, the recent innovation of low copy number DNA profiling is explained along with the special considerations needed to report in court.     

A critique of race-based and genomic medicine

Now that a composite human genome has been sequenced (HGP), research has accelerated to discover precise genetic bases of several chronic health issues, particularly in the realms of cancer and cardiovascular disease. It is anticipated that in the future it will be possible and cost effective to regularly sequence individual genomes, and thereby produce a DNA profile that potentially can be used to assess the health risks for each person with respect to certain genetically predisposed conditions. Coupled with that enormous diagnostic power, it will then depend upon equally rapid research efforts to develop personalized courses of treatment, including that of pharmaceutical therapy. Initial treatment attempts have been made to match drug efficacy and safety to individuals of assigned or self-identified groups according to their genetic ancestry or presumed race. A prime example is that of BiDil, which was the first drug approved by the US FDA for the explicit treatment of heart patients of African American ancestry. This race-based approach to medicine has been met with justifiable criticism, notably on ethical grounds that have long plagued historical applications and misuses of human race classification, and also on questionable science. This paper will assess race-based medical research and practice in light of a more thorough understanding of human genetic variability. Additional concerns will be expressed with regard to the rapidly developing area of pharmacogenomics, promoted to be the future of personalized medicine. Genomic epidemiology will be discussed with several examples of on-going research that hopefully will provide a solid scientific grounding for personalized medicine to build upon.     

Producing Absolute Truth: CSI Science as Wishful Thinking

ABSTRACT  Forensic science has come to be assigned an important role in contemporary crime fiction. In this article, I analyze the cultural repertoire of forensic science conveyed by the popular television show Crime Scene Investigation (CSI). I argue that CSI science, in delivering an absolute "truth" about how and by whom crimes have been committed, is equated with justice, effectively superseding nonfictional forensic science as well as nonfictional judicature as a whole. Thus, CSI as a cultural performance adds to the mediascape a repertoire of wishful-thinking science with which to think about perceptions of and desires for crime and justice in nonfictional society. This repertoire seems to be considered relevant enough to nonfictional society to cause concern about the judicial system, as expressed in discussions of the so-called " CSI effect."     

Laser-induced breakdown spectroscopy (LIBS): a novel technology for identifying microbes causing infectious diseases

With the advent of improved experimental techniques and enhanced precision, laser-induced breakdown spectroscopy (LIBS) offers a robust tool for probing the chemical constituents of samples of interest in biological sciences. As the interest continues to grow rapidly, the domain of study encompasses a variety of applications vis-à-vis biological species and microbes. LIBS is basically an atomic emission spectroscopy of plasma produced by the high-power pulsed laser which is tightly focused on the surface of any kinds of target materials in any phase. Due to its experimental simplicity, and versatility, LIBS has achieved its high degree of interest particularly in the fields of agricultural science, environmental science, medical science, forensic sciences, and biology. It has become a strong and sensitive elemental analysis tool as compared to the traditional gold standard techniques. As such, it offers a handy, rapid, and flexible elemental measurement of the sample compositions, together with the added benefits of less cumbersome sample preparation requirements. This technique has extensively been used to detect various microorganisms, extending the horizon from bacteria, molds, to yeasts, and spores on surfaces, while also being successful in sensing disease-causing viruses. LIBS-based probe has also enabled successful detection of bacteria in agriculture as well. In order for good quality processing of food, LIBS is also being used to detect and identify bacteria such as Salmonella enteric serovar typhimurium that causes food contamination. Differences in soil bacteria isolated from different mining sites are a very good indicator of relative environmental soil quality. In this connection, LIBS has effectively been employed to discriminate both the inter- and intra-site differences of the soil quality across varying mining sites. Therefore, this article summarizes the basic theory and use of LIBS for identifying microbes causing serious agricultural and environmental infectious diseases.     

Decomposition and dipteran succession in pig carrion in central Argentina: ecological aspects and their importance in forensic science

Data on the insect species associated with corpse decomposition are particularly important for estimation of the post-mortem interval (PMI) in forensic science because the PMI is based on the lifecycle and behaviour of necrophagous insects, among other measures. To determine the dipteran succession on pig carrion, four experiments, one in each season, were carried out during 2004 in a rural area of Córdoba, central Argentina. Two pigs ( Sus scrofa L.) were used in each of the four experiments. At each time-point one pig was placed in the shade and the other under direct sunlight. Insects were collected daily during the first 4 weeks and thereafter every 2 or 3 days. Five stages of decomposition were observed and a total of 24 710 adult specimens were collected, belonging to the following eight families of Diptera: Calliphoridae; Muscidae; Sarcophagidae; Phoridae; Piophilidae; Fanniidae; Sphaeroceridae, and Anthomyiidae. All Calliphoridae collected in this study were considered to be of potential forensic importance because of their necrophagous behaviour and because their immature stages use carrion as a food source. Other species, such as Musca domestica L. and Ophyra aenescens (Wiedemann), were also considered to represent potential forensic indicators.     

Population genetic data and forensic parameters of 30 autosomal InDel markers in Santa Catarina State population,Southern Brazil

The application of DNA technology in forensic investigations has grown rapidly in the last 25 years and with an exponential increase of short tandem repeats (STRs) data, usually presented as allele frequencies, that may be later used as databases for forensic and population genetics purposes. Thereby, classes of molecular markers such as single nucleotide polymorphisms and insertions/deletions (InDels) have been presented as another option of genetic marker sets. These markers can be used in paternity cases, when mutations in STR polymorphisms are present, as well as in highly degraded DNA analysis. In the present study, the allele frequencies and heterozygosity (H) of a 30 InDel markers set were determined and the forensic efficacy was evaluated through estimation of discrimination power (DP), match probability, typical paternity index and power of paternity exclusion in 108 unrelated volunteers from the State of Santa Catarina (South Brazil). The observed H per locus showed a range between 0.370 and 0.574 (mean = 0.479). HLD128 was the locus with the highest DP (DP = 0.656). DP for all markers combined was greater than 99.9999999999646 % which provides satisfactory levels of information for forensic demands. Genetic comparisons (exact tests of population differentiation and pairwise genetic distances) revealed that the population of Santa Catarina State differs from Korea and USA Afro-American populations but is similar to the Portuguese, German, Polish, Spanish and Basque populations.