scholarly journals Microsatellite DNA Analysis for Diversity Study, Individual Identification and Parentage Control in Pig Breeds in Poland

Genes ◽  
2021 ◽  
Vol 12 (4) ◽  
pp. 595
Author(s):  
Anna Radko ◽  
Grzegorz Smołucha ◽  
Anna Koseniuk
Keyword(s):  
Dna Analysis ◽  
Inbreeding Coefficient ◽  
Individual Identification ◽  
Large White ◽  
Str Markers ◽  
Average Value ◽  
Animal Identification ◽  
Medium Level ◽  
Diversity Study ◽  
Parentage Control

Swine DNA profiling is of high importance for animal identification and parentage verification. The aim of this study was to test a set of 14 microsatellite (STR) markers recommended by ISAG for parentage verification in Polish Landrace (PL, n = 900), Polish Large White (PLW, n = 482), Pulawska (PUL, n = 127), and Duroc pigs (DU n = 108). The studied breeds showed a medium level of genetic differentiation. The average value of heterozygosity and degree of polymorphism (PIC) were above 0.5 for the studied breeds, except for the DU breed (PIC = 0.477). The population inbreeding coefficient indicates an absence of inbreeding in the studied breeds (an average value of FIS = 0.007). The cumulative power of discrimination for all breeds reached high values close to 1.0, while the probability of identity (PID) was low, with PID values ranging between 10−9 (for DU) and 10−12 (for PLW). The cumulative exclusion probability for PE1 and PE2 showed that the parentage can be confirmed with a probability of from 92.75% to 99.01% and from 99.49% to 99.97%, respectively.

scholarly journals Microsatellite DNA Analysis of Genetic Diversity and Parentage Testing in the Popular Dog Breeds in Poland

Genes ◽  
2021 ◽  
Vol 12 (4) ◽  
pp. 485
Author(s):  
Anna Radko ◽  
Angelika Podbielska
Keyword(s):  
Genetic Diversity ◽  
Dna Analysis ◽  
Inbreeding Coefficient ◽  
Effective Number ◽  
Effective Population ◽  
German Shepherd ◽  
Medium Level ◽  
The Mean ◽  
French Bulldog ◽  
Yorkshire Terrier

There is growing concern that extreme breed standardization contributes to a reduction of the effective population size and high levels of inbreeding, resulting in the loss of genetic diversity in many breeds. This study examined genetic diversity among eight popular dog breeds in Poland and evaluated the effectiveness of a 21-microsatellite (STR) panel recommended by the International Society for Animal Genetics (ISAG) for parent verification. The following breeds were characterized: German Shepherd, Maltese, Irish Wolfhound, Yorkshire Terrier, Biewer Yorkshire Terrier, Golden Retriever, Labrador Retriever, and French Bulldog. STRUCTURE analysis showed breed distinctiveness among all the dog breeds under study. Reynold’s distance ranged between θw = 0.634 and θw = 0.260. The studied breeds showed a medium level of genetic differentiation; the mean number of alleles per locus ranged from 3.4 to 6.6, and the effective number of alleles from 2.1 to 3.5. The mean degree of heterozygosity varied from 49% to 69% and from 47% to 68% for HO and HE, respectively. The population inbreeding coefficient (FIS) indicated an absence of inbreeding in the studied breeds. The average polymorphism information content (PIC) values for most of the breeds were higher than 0.5. The cumulative power of discrimination (PD) for all the markers in all breeds reached high values (close to 1.0), while the probability of identity (PID) was low, ranging between 10−11 and 10−19. The cumulative exclusion probability when the genotypes of one (PE1) and both parents (PE2) are known and showed that the parentage can be confirmed with a probability of 94.92% to 99.95% and 99.78% to 99.9999%, respectively.

scholarly journals Population structure of Czech cold-blooded breeds of horses

2011 ◽  
Vol 54 (1) ◽  
pp. 1-9
Author(s):  
L. Vostrý ◽  
Z. Čapková ◽  
J. Přibyl ◽  
B. Hofmanová ◽  
H. Vostrá Vydrová ◽  
...  
Keyword(s):  
Population Structure ◽  
Genetic Variability ◽  
Population Size ◽  
Effective Population Size ◽  
Inbreeding Coefficient ◽  
Effective Population ◽  
The Czech Republic ◽  
Generation Interval ◽  
Average Value ◽  
Inbreeding Coefficients

Abstract. In order to estimate effective population size, generation interval and the development of inbreeding coefficients (Fx) in three original breeds of cold-blooded horses kept in the Czech Republic: Silesian Noriker (SN), Noriker (N) and Czech-Moravian Belgian horse (CMB) all animals of the particular breeds born from 1990 to 2007 were analysed. The average values of generation interval between parents and their offspring were: 8.53 in SN, 8.88 in N and 8.56 in CMB. Average values of effective population size were estimated to be: 86.3 in SN, 162.3 in N and 104.4 in CMB. The average values of inbreeding coefficient were 3.13 % in SN stallions and 3.39 % in SN mares, in the N breed 1.76 % and 1.26 % and in the CMB breed 3.84 % and 3.26 % respectively. Overall averages of Fx were: 3.23 %, 1.51 % and 3.55 % for the breeds SN, N and CMB. The average value of inbreeding coefficient Fx increased by 1.22 % in SN, by 0.35 % in N and by 1.01 % in CMB, respectively. This may lead to a reduction in genetic variability. Reduction in genetic variability could be either controlled in cooperation with corresponding populations of cold-blooded breeds in other European countries or controlled by number of sires used in population

scholarly journals Effects of inbreeding on number of piglets born total, born alive and weaned in Austrian Large White and Landrace pigs

2009 ◽  
Vol 52 (1) ◽  
pp. 51-64 ◽  
Author(s):  
A. Köck ◽  
B. Fürst-Waltl ◽  
R. Baumung
Keyword(s):  
Inbreeding Depression ◽  
Reproductive Performance ◽  
Regression Models ◽  
Inbreeding Coefficient ◽  
Significant Positive Effect ◽  
Weaned Piglets ◽  
Large White ◽  
Inbreeding Coefficients ◽  
Negative Effect ◽  
Positive Effect

Abstract. In this study records of 58 925 litters of Austrian Large White and 17 846 litters of Austrian Landrace pigs were analysed. Regression models were used to determine the effects of litter, dam and sire inbreeding on total number of born, born alive and weaned piglets in Large White and Landrace. In both populations, litter and dam inbreeding showed a negative effect on all traits. Sire inbreeding had no effect in Large White, whereas a significant positive effect was observed in Landrace. On average, inbred sires with an inbreeding coefficient of 10 % had 0.45 more piglets born total and 0.43 more piglets born alive in comparison to non-inbred sires. In a further analysis the total inbreeding coefficients of the animals were divided into two parts: »new« and »old« inbreeding. »New« inbreeding was defined as the period of the first five generations. It was shown that the observed inbreeding effects were not only caused by recent inbreeding. Reproductive performance was also affected by »old« inbreeding. Finally partial inbreeding coefficients of four important ancestors in each population were calculated to investigate if inbreeding effects are similar among these ancestors. The results revealed a varation of inbreeding effects among the four ancestors. Alleles contibuting to inbreeding depression were descendent from specific ancestors.

scholarly journals Similarity of 26 New Released Rice Varieties and Rice Parental Hybrids Based on 36 SSR Markers

2014 ◽  
Vol 33 (2) ◽  
pp. 71
Author(s):  
Untung Susanto ◽  
Satoto Satoto ◽  
Nofi A. Rohmah ◽  
Made Jana Mejaya
Keyword(s):  
Genetic Diversity ◽  
Phylogenetic Analysis ◽  
Ssr Markers ◽  
Rice Varieties ◽  
Average Value ◽  
Modified Method ◽  
Rice Chromosomes ◽  
Medium Level ◽  
Rice Genotypes ◽  
Parental Lines

More than 200 rice varieties had been released in Indonesia, but the genetic variability among those released varieties was suspected to be relatively low. Molecular markers, especially SSR could be used as a tool to disect the distinctness among rice genotypes, albeit phenotipically similar varieties. The technique could also be used to prove the authenticity of a variety. This research was aimed to obtain DNA fingerprinting data of new released rice varieties and hybrid parental lines using SSR markers. A total of 26 rice genotypes consisted of three upland, ten irrigated, five swampy rice varieties, along with eight hybrid parental lines were used in this experiments. The DNA was extracted from young leaf samples using CTAB modified method and was amplified with 36 SSR markers linked to important rice traits which spread accross the 12 rice chromosomes. The experiment was conducted in Plant Breeding Laboratory of Indonesian Center for Rice Research (ICRR) during 2012. The results showed that PIC value of the genotypes were mostly at medium level of the genetic diversity with the average value of 0.4451. The phylogenetic analysis showed that at the genetic distance of 10%, the genotypes were separated into 9 groups, i.e. Inpago 6, Inpara 5, and BH33d each stood alone while (Inpara 1, Inpara 2 , and Inpara 3); (Inpari 18 and Inpari 19, Inpago 4, Inpago 5, and Inpara 4); (Inpari 11, Inpari 12, Inpari 13, Inpari 14, Inpari 15, Inpari 16, Inpari 17, and Inpari 20); (GMJ6B, B6, and IR79156B); (PK21, BH95E, Bio9, and R14) each belong to one group. The grouping of the genotypes in this study seemed to follow the adaptation type to agro ecosystems. The hybrid parental lines tended to stay in different group from the inbred varieties. The application of these 36 SSR markers was able to distinguish among 26 genotypes rather distinctly.The use of more markers should give more powerful data to distinguish among genotypes.

scholarly journals Autosomal STR Profiling and Databanking in Malaysia: Current Status and Future Prospects

Genes ◽  
2020 ◽  
Vol 11 (10) ◽  
pp. 1112
Author(s):  
Hashom Mohd Hakim ◽  
Hussein Omar Khan ◽  
Japareng Lalung ◽  
Bryan Raveen Nelson ◽  
Geoffrey Keith Chambers ◽  
...  
Keyword(s):  
Tandem Repeats ◽  
Dna Analysis ◽  
Dna Profiling ◽  
Individual Identification ◽  
Current Status ◽  
Weight Of Evidence ◽  
Forensic Dna ◽  
Kinship Analysis ◽  
Forensic Dna Analysis ◽  
Dna Profiles

Science and technology are extensively used in criminal investigation. From the mid- to late-1980s, one of the scientific discoveries that has had a particularly remarkable impact on this field has been the use of highly variable DNA sequence regions (minisatellites) in the human genome for individual identification. The technique was initially referred to as DNA fingerprinting, but is now more widely referred to as DNA profiling. Since then, many new developments have occurred within this area of science. These include the introduction of new genetic markers (microsatellites also known as short tandem repeats/STRs), the use of the polymerase chain reaction for target amplification, the development of DNA databases (databanking), and the advancement and/or improvement of genotyping protocols and technologies. In 2019, we described the progress of DNA profiling and DNA databanking in Malaysia for the first time. This report included information on DNA analysis regulations and legislation, STR genotyping protocols, database management, and accreditation status. Here, we provide an update on the performance of our DNA databank (numbers of DNA profiles and hits) plus the technical issues associated with correctly assigning the weight of evidence for DNA profiles in an ethnically diverse population, and the potential application of rapid DNA testing in the country. A total of 116,534 DNA profiles were obtained and stored in the Forensic DNA Databank of Malaysia (FDDM) by 2019, having increased from 70,570 in 2017. The number of hits increased by more than three-fold in just two years, where 17 and 69 hits between the DNA profiles stored in the FDDM and those from crime scenes, suspects, detainees, drug users, convicts, missing persons, or volunteers were recorded in 2017 and 2019, respectively. Forensic DNA analysis and databanking are thus progressing well in Malaysia and have already contributed to many criminal investigations. However, several other issues are discussed here, including the need for STR population data for uncharacterized population groups, and pilot trials for adopting rapid DNA profiling technology. These aspects should be considered by policy makers and law enforcement agencies in order to increase the reliability and efficiency of DNA profiling in criminal cases and in kinship analysis in Malaysia.

Fenomen identyfikacji genetycznej

2016 ◽  
Vol 14 (4 (2)) ◽  
pp. 37-49
Author(s):  
Jarosław Moszczyński
Keyword(s):  
Dna Analysis ◽  
Human Identification ◽  
Genetic Identification ◽  
Individual Identification ◽  
Scientific Development ◽  
Disaster Victims ◽  
Short Period ◽  
Golden Standard ◽  
Computer Based ◽  
High Level

DNA identification, which counts a few decades only, has revolutionized forensic science. Over a short period of time, genetic identification has become the most effective method of human identification, even when a tiny amount of biological material is available. Its dynamic development has allowed shifting efforts from group to individual identification. DNA analysis is broadly used for identification of criminal offenders, and due to computer-based DNA data bases – also allows detection of offenders internationally. The technique is fundamental in identification of disaster victims and also historically – in identification of bone remains. Furthermore, it is very useful in verification of wrongful convictions. In civil litigation, DNA analysis is irreplaceable in cases involving paternity testing. Genetic identification has quite solid scientific foundations and therefore, it has dethroned fingerprint identification, being earlier recognized as the “golden” standard of human identification. What is more, DNA analysis triggered the wave of criticism towards the majority of forensic methods of identification, which are considered to be characteristic by a high level of subjectivity, and which started the process of scientific development of these methods.

scholarly journals REPRODUCING QUALITIES OF SOWS OF DIFFERENT FAMILIES OF LARGE WHITE AND POLTAVA MEAT BREEDS IN THE TRIBAL HERDS OF PIGS OF KHMELNYCHINA

2021 ◽  
Vol 61 ◽  
pp. 192-200
Author(s):  
I. V. Verbuch ◽  
H. B. Bratkovska
Keyword(s):  
Live Weight ◽  
Reproductive Capacity ◽  
Evaluation Index ◽  
Correct Selection ◽  
Large White ◽  
Average Value ◽  
Reproductive Ability ◽  
The Family ◽  
Modal Class ◽  
White Breed

Goal. To assess the reproductive ability of inspected sows of different families of large white and Poltava meat breeds in breeding herds of Khmelnytsky region on the main selection signs using the evaluation indices of reproductive qualities. Methods. Comparison, zootechnical and biometric analyzes. Results. The reproductive qualities of sows of different families in breeding herds of pigs of large white and Poltava meat breeds of farms of Khmelnytsky region were evaluated. Among the families of large white breed, the best indicators for assessing the reproductive capacity of inspected sows were found in the family of the Sorceress, in which the main feature – fertility by modal class of distribution was 10.8 heads piglets per 1 farrowing, which is 2.8% more than the Taiga family of the same class. According to the modal class M+, the fertility of the Sorceress family (12.0 piglets per farrowing) was 0.3 heads higher than that of the females of this class of the Taiga family (11.7 heads per farrowing). The modal class М¯ of the firstborn family of the Sorceress was the best with a fertility of 9.7 heads, which is 3.2% higher than the Taiga family. Indicators of the number of piglets at weaning at the age of 30 days, the weight of the nest at weaning, the live weight of 1 head of piglets and preservation of offspring (9.5 heads; 94.1 kg; 9.9 kg; 87.9%), by class (М°), the Sorceress family was 3.2 heads bigger; 7.4 kg; 2.0 kg and 0.5% compared to the Taiga family. As a result of ranking sows by evaluation indices of reproductive qualities, I (evaluation index by a limited number of traits) and P (complex evaluation index) had an advantage by the most prolific sows of the Sorceress family of class M+, in which these indices were 43.0 and 96.1 points. In the process of research of reproductive ability of sows of Poltava meat breed of different families it was established that on the basis of fertility the Rosinka family is the best, whose fertility by distribution by class (М°) was 10.7 heads. piglets per 1 farrowing. It exceeds the average value for 5 families: 0.4 heads of Dorza and Vorskla families, 0.6 goals. Bystro's family and 1 goal. the Palm family. According to the modal class M+, the Rosinka family (11.8 piglets per 1 farrowing) has 0.3 heads more fertility than the Dorza and Vorskla families, 0.6 goals higher. and 0.1 heads than the Bistra and Palma families. The lowest fertility of sows in the class (М°) was recorded in the Dorza family (8.9 heads of piglets per farrowing). It should be noted that the Dorza family and the smallest Palma family in the M+ class have the best nest weight at weaning at the age of 45 days (138.7 and 144.2 kg), which is 18.6 more than in the М° class. and 20.7 kg. According to the indicators of the number of piglets at weaning and live weight of 1 head, the Palma's family of class M+ (10.6 heads and 13.6 kg) is distinguished. The best preservation of the offspring in the Palma's family of class M¯ = 94.7%. As a result of ranking sows of different families of Poltava meat breed according to the estimated indices of reproductive qualities, it was noted that the highest number of points in the modal class (М°) was obtained by the family Rosinka I = 40.8 and P = 94.8, which is more than the average for all families by 2.1 and 3.6 points. According to the evaluation indices (I) and (P), the best were sows of the Rosinka family of class M+, in which these indices corresponded to the values of 42.7 and 99.4 points. Conclusions. Among different families, the best results of assessing the reproductive capacity of sows on the main selection traits and evaluation indices were found in the families of the Sorceress of the Great White breed and the family of Rosinka of the Poltava meat breed, which should continue to be used for breeding in breeding herds of pigs. An important factor in increasing the productivity of sows, of course, should be the correct selection of the level of reproductive breeding traits and a significant increase in feeding and housing conditions.

scholarly journals The assessment of the efficacy of STRs panels recommended by the ISAG for canine pedigrees analysis for forensic casework

2021 ◽  
Vol 0 (0) ◽  
Author(s):  
Anna Radko ◽  
Angelika Podbielska ◽  
Izabela A. Wierzbowska
Keyword(s):  
Statistical Analysis ◽  
Crime Scene ◽  
Individual Identification ◽  
Dna Profile ◽  
Str Markers ◽  
Forensic Casework ◽  
The Core ◽  
Forensic Investigations

Abstract Canine DNA is widely used in forensic investigations, particularly in dog attacks cases on humans. Nowadays, STR markers are employed worldwide in forensic laboratories to test human and animal genotypes. In the study we analysed the effectiveness of panel – 18 STR as previously recommended by ISAG and the same panel with three additional markers – 21 STR, which has been recommended by ISAG as the core panel for dog identification since 2016. We calculated the PD, PID for these sets of panels and estimated RMP based on the DNA profile obtained during an investigation of a woman bitten by a dog. The high combined CPD value for 18 and 21 STRs showed values close to 1.0. The CPID value for theses panels was 5.2 × 10−10 to 6.4 × 10−14. Statistical analysis estimated the random DNA match, in the case of the woman bitten by a dog, with a probability of 4.3×1019 and 2.8×1022, using 18 and 21 STR panels respectively, and that the canine DNA profile from the crime scene originated from the suspected dog and not from another random dog. Our results show that both STR panels can be used effectively for individual identification and forensic casework.

scholarly journals Microchip implant system used for animal identification in laboratory rabbits, guineapigs, woodchucks and in amphibians

1995 ◽  
Vol 29 (3) ◽  
pp. 339-344 ◽  
Author(s):  
Margund Mrozek ◽  
Roger Fischer ◽  
Michael Trendelenburg ◽  
Uwe Zillmann
Keyword(s):  
Legal Aspects ◽  
Individual Identification ◽  
Reliable System ◽  
Marmota Monax ◽  
Animal Identification ◽  
Pleurodeles Waltlii ◽  
Implant System ◽  
New System ◽  
Implantation Procedure

Traditional methods for animal identification have a number of drawbacks. We evaluated a new system for individual identification using microchip implants in rabbits, guineapigs, woodchucks ( Marmota monax) and amphibians ( Xenopus laevis, Pleurodeles waltlii). Implantation procedure and long-term observations are described. Microchip implants proved to be a practicable and reliable system for animal identification without obvious adverse effects. The applicability of electronic animal identification in comparison with common methods and with regard to animal welfare and legal aspects is discussed.

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