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Kinship testing

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https://www.readbyqxmd.com/read/29073100/kinship-and-familiarity-mitigate-costs-of-social-conflict-between-seychelles-warbler-neighbors
#1
Kat Bebbington, Sjouke A Kingma, Eleanor A Fairfield, Hannah L Dugdale, Jan Komdeur, Lewis G Spurgin, David S Richardson
Because virtually all organisms compete with others in their social environment, mechanisms that reduce conflict between interacting individuals are crucial for the evolution of stable families, groups, and societies. Here, we tested whether costs of social conflict over territorial space between Seychelles warblers (Acrocephalus sechellensis) are mitigated by kin-selected (genetic relatedness) or mutualistic (social familiarity) mechanisms. By measuring longitudinal changes in individuals' body mass and telomere length, we demonstrated that the fitness costs of territoriality are driven by a complex interplay between relatedness, familiarity, local density, and sex...
October 24, 2017: Proceedings of the National Academy of Sciences of the United States of America
https://www.readbyqxmd.com/read/29048537/group-living-and-male-dispersal-predict-the-core-gut-microbiome-in-wild-baboons
#2
Laura E Grieneisen, Josh Livermore, Susan Alberts, Jenny Tung, Elizabeth A Archie
The mammalian gut microbiome plays a profound role in the physiology, metabolism, and overall health of its host. However, biologists have only a nascent understanding of the forces that drive inter-individual heterogeneity in gut microbial composition, especially the role of host social environment. Here we used 178 samples from 78 wild yellow baboons (Papio cynocephalus) living in two social groups to test how host social context, including group living, social interactions within groups, and transfer between social groups (e...
October 1, 2017: Integrative and Comparative Biology
https://www.readbyqxmd.com/read/29026880/adaptive-social-strategies-in-a-solitary-carnivore
#3
L Mark Elbroch, Michael Levy, Mark Lubell, Howard Quigley, Anthony Caragiulo
Cost-benefit trade-offs for individuals participating in social behaviors are the basis for current theories on the evolution of social behaviors and societies. However, research on social strategies has largely ignored solitary animals, in which we assume that rare interactions are explained by courtship or territoriality or, in special circumstances, resource distributions or kinship. We used directed network analysis of conspecific tolerance at food sources to provide evidence that a solitary carnivore, the puma (Puma concolor), exhibited adaptive social strategies similar to more social animals...
October 2017: Science Advances
https://www.readbyqxmd.com/read/29024923/a-ghep-isfg-collaborative-study-on-the-genetic-variation-of-38-autosomal-indels-for-human-identification-in-different-continental-populations
#4
R Pereira, C Alves, M Aler, A Amorim, C Arévalo, E Betancor, D Braganholi, M L Bravo, P Brito, J J Builes, G Burgos, E F Carvalho, A Castillo, C I Catanesi, R M B Cicarelli, P Coufalova, P Dario, M E D'Amato, S Davison, J Ferragut, M Fondevila, S Furfuro, O García, A Gaviria, I Gomes, E González, A Gonzalez-Liñan, T E Gross, A Hernández, Q Huang, S Jiménez, L F Jobim, A M López-Parra, M Marino, S Marques, G Martínez-Cortés, V Masciovecchio, D Parra, G Penacino, M F Pinheiro, M J Porto, Y Posada, C Restrepo, T Ribeiro, L Rubio, A Sala, A Santurtún, L S Solís, L Souto, E Streitemberger, A Torres, C Vilela-Lamego, J J Yunis, I Yurrebaso, L Gusmão
A collaborative effort was carried out by the Spanish and Portuguese Speaking Working Group of the International Society for Forensic Genetics (GHEP-ISFG) to promote knowledge exchange between associate laboratories interested in the implementation of indel-based methodologies and build allele frequency databases of 38 indels for forensic applications. These databases include populations from different countries that are relevant for identification and kinship investigations undertaken by the participating laboratories...
September 22, 2017: Forensic Science International. Genetics
https://www.readbyqxmd.com/read/28985730/clinical-utility-of-the-low-density-infinium-qc-genotyping-array-in-a-genomics-based-diagnostics-laboratory
#5
Petr Ponomarenko, Alex Ryutov, Dennis T Maglinte, Ancha Baranova, Tatiana V Tatarinova, Xiaowu Gai
BACKGROUND: With 15,949 markers, the low-density Infinium QC Array-24 BeadChip enables linkage analysis, HLA haplotyping, fingerprinting, ethnicity determination, mitochondrial genome variations, blood groups and pharmacogenomics. It represents an attractive independent QC option for NGS-based diagnostic laboratories, and provides cost-efficient means for determining gender, ethnic ancestry, and sample kinships, that are important for data interpretation of NGS-based genetic tests. METHODS: We evaluated accuracy and reproducibility of Infinium QC genotyping calls by comparing them with genotyping data of the same samples from other genotyping platforms, whole genome/exome sequencing...
October 6, 2017: BMC Medical Genomics
https://www.readbyqxmd.com/read/28973747/anthropization-as-a-determinant-factor-in-the-genetic-structure-of-copernicia-prunifera-arecaceae
#6
L G Pinheiro, K P T Chagas, A S M Freire, M C Ferreira, C G Fajardo, F A Vieira
This study uses ISSR molecular markers to characterize the demographic pattern, and spatial genetic structure (SGS) at different life stages of development (cohorts) in a natural population of Copernicia prunifera in the Rio Grande do Norte State, Brazil. All individuals were sampled and georeferenced in a 0.55-ha plot. The demographic analyses showed a clustered pattern in the first-distance classes and a random or segregated pattern at higher distance classes for all cohorts. Among the three studied life stages, juveniles showed the greatest value for Nei's genetic diversity index (HE = 0...
September 27, 2017: Genetics and Molecular Research: GMR
https://www.readbyqxmd.com/read/28961250/estimation-of-kinship-coefficient-in-structured-and-admixed-populations-using-sparse-sequencing-data
#7
Jinzhuang Dou, Baoluo Sun, Xueling Sim, Jason D Hughes, Dermot F Reilly, E Shyong Tai, Jianjun Liu, Chaolong Wang
Knowledge of biological relatedness between samples is important for many genetic studies. In large-scale human genetic association studies, the estimated kinship is used to remove cryptic relatedness, control for family structure, and estimate trait heritability. However, estimation of kinship is challenging for sparse sequencing data, such as those from off-target regions in target sequencing studies, where genotypes are largely uncertain or missing. Existing methods often assume accurate genotypes at a large number of markers across the genome...
September 2017: PLoS Genetics
https://www.readbyqxmd.com/read/28925528/relatedness-of-wildlife-and-livestock-avian-isolates-of-the-nosocomial-pathogen-acinetobacter-baumannii-to-lineages-spread-in-hospitals-worldwide
#8
Gottfried Wilharm, Evelyn Skiebe, Paul G Higgins, Marie T Poppel, Ulrike Blaschke, Sarah Leser, Christine Heider, Magdalena Heindorf, Paul Brauner, Udo Jäckel, Karin Böhland, Christiane Cuny, Andżelina Łopińska, Piotr Kaminski, Mariusz Kasprzak, Marcin Bochenski, Olaf Ciebiera, Marcin Tobółka, Katarzyna M Żołnierowicz, Joachim Siekiera, Harald Seifert, Stéphanie Gagné, Suzana P Salcedo, Michael Kaatz, Franziska Layer, Jennifer K Bender, Stephan Fuchs, Torsten Semmler, Yvonne Pfeifer, Leszek Jerzak
The natural habitats and potential reservoirs of the nosocomial pathogen Acinetobacter baumannii are poorly defined. Here, we put forth and tested the hypothesis of avian reservoirs of A. baumannii. We screened tracheal and rectal swab samples from livestock (chicken, geese) and wild birds (white stork nestlings) and isolated A. baumannii from 3% of sampled chicken (n = 220), 8% of geese (n = 40) and 25% of white stork nestlings (n = 661). Virulence of selected avian A. baumannii isolates was comparable to that of clinical isolates in the Galleria mellonella infection model...
October 2017: Environmental Microbiology
https://www.readbyqxmd.com/read/28891385/trauma-informed-parenting-classes-delivered-to-rural-kinship-parents-a-pilot-study
#9
Karen J Foli, Stephanie Woodcox, Susan Kersey, Lingsong Zhang, Brooke Wilkinson
BACKGROUND: Without an informed approach, kinship parents, often grandparents, may struggle to effectively interact with their children who have experienced trauma. OBJECTIVES: The purpose of this pilot study was to describe the overall impact and acceptability of a trauma-informed parenting curriculum delivered to 16 rural-dwelling kinship parents. Nursing faculty partnered with Cooperative Extension Educators to deliver this curriculum, developed by the National Child Traumatic Stress Network...
September 1, 2017: Journal of the American Psychiatric Nurses Association
https://www.readbyqxmd.com/read/28868577/x-chromosomal-str-based-genetic-structure-of-sichuan-tibetan-minority-ethnicity-group-and-its-relationships-to-various-groups
#10
Guanglin He, Ye Li, Xing Zou, Ying Zhang, Hepei Li, Mengge Wang, Jin Wu
The X-chromosomal short tandem repeats (STRs) with more informative than autosomal STRs in some complicated biological relationships identification due to its specific mode of genetic transmission can be used as a complementary tool in forensic case practices. In this study, we presented the population genetic data of 19 X-STRs, consisting of DXS10174, DXS10075, DXS10079, DXS101, DXS10101, DXS10103, DXS10134, DXS10135, DXS10148, DXS10159, DXS10162, DXS10164, DXS6789, DXS6809, DXS7132, DXS7423, DXS7424, DXS8378, and HPRTB loci, in a sample of 235 individuals of Tibetan nationality from Sichuan province, Southwest China...
September 3, 2017: International Journal of Legal Medicine
https://www.readbyqxmd.com/read/28868569/genetic-analysis-of-12-x-str-loci-in-the-serbian-population-from-vojvodina-province
#11
Igor Veselinović, Dušan Vapa, Mihajla Djan, Nevena Veličković, Tanja Veljović, Galina Petrić
The analysis of 12 X-STR loci included in the Investigator® Argus X-12 kit was performed on a sample of 325 unrelated persons from Vojvodina Province, Republic of Serbia. No significant differences were observed in the allele frequencies in males and females. Heterozygosity values among the studied loci ranged from 67.62 to 94.28%. All loci in female individuals were consistent with the Hardy-Weinberg equilibrium test. The combined power of discrimination values in male and female individuals was 0.9999999994 and 0...
September 3, 2017: International Journal of Legal Medicine
https://www.readbyqxmd.com/read/28858674/genetic-characterization-of-guinea-bissau-using-a-12-x-chromosomal-str-system-inferences-from-a-multiethnic-population
#12
Iva Gomes, Plácido J P Pereira, Sonja Harms, Andréa M Oliveira, Peter M Schneider, António Brehm
A male West African sample from Guinea-Bissau (West-African coast) was genetically analyzed using 12 X chromosomal short tandem repeats that are grouped into four haplotype groups. Linkage disequilibrium was tested (p≤0.0008) and association was detected for the majority of markers in three out of the four studied haplotype clusters. The sample of 332 unrelated individuals analyzed in this study belonged to several recognized ethnic groups (n=18) which were used to evaluate the genetic variation of Guinea-Bissau's population...
August 24, 2017: Forensic Science International. Genetics
https://www.readbyqxmd.com/read/28854191/use-of-noninvasive-bug-eggs-to-enable-comparative-inferences-on-genetic-mating-system-with-and-without-parental-information-a-study-in-a-cattle-egret-colony
#13
Carolina Isabel Miño, Elaine Dantas de Souza, Emmanuel Moralez-Silva, Talita Alvarenga Valdes, Vera Lúcia Cortiço Corrêa Rodrigues, Sílvia Nassif Del Lama
Colonial waterbirds such as herons, egrets and spoonbills exhibit ecological characteristics that could have promoted the evolution of conspecific brood parasitism and extra-pair copulation. However, an adequate characterization of the genetic mating systems of this avian group has been hindered by the lack of samples of elusive candidate parents which precluded conducting conventional parentage allocation tests. Here, we investigate the genetic mating system of the invasive cattle egret using hematophagous insects contained in fake eggs to collect blood from incubating adults in a wild breeding colony...
2017: PloS One
https://www.readbyqxmd.com/read/28832918/predictors-of-insubordinate-aggression-among-captive-female-rhesus-macaques
#14
Shannon K Seil, Darcy L Hannibal, Brianne A Beisner, Brenda McCowan
OBJECTIVES: Cercopithicine primates tend to have nepotistic hierarchies characterized by predictable, kinship-based dominance. Although aggression is typically directed down the hierarchy, insubordinate aggression does occur. Insubordination is important to understand because it can precipitate social upheaval and undermine group stability; however, the factors underlying it are not well understood. We test whether key social and demographic variables predict insubordination among captive female rhesus macaques...
November 2017: American Journal of Physical Anthropology
https://www.readbyqxmd.com/read/28830585/mycobacterium-kansasii-isolated-from-tuberculinpositive-rhesus-macaques-macaca-mulatta-in-the-absence-of-disease
#15
Steven T Shipley, David K Johnson, Morteza Roodgar, David Glenn Smith, Charles A Montgomery, Steven M Lloyd, James A Higgins, Edwin H Kriel, Hilton J Klein, William P Porter, Jerome B Nazareno, Paul W Houghton, Aruna Panda, Louis J DeTolla
Mycobacterial infections are of primary health concern in NHP colonies in biomedical research. NHP are constantly monitored and screened for Mycobacterium spp. We report 6 Chinese-origin rhesus macaques infected with Mycobacterium kansasii that exhibited positive tuberculin skin tests in the absence of disease. Two of these macaques were being used for research purposes; the remaining 4 macaques were residing at the contract quarantine company. Histopathology and acid-fast staining of fixed tissues from all macaques showed that all were free of disease...
August 1, 2017: Comparative Medicine
https://www.readbyqxmd.com/read/28808816/a-genome-wide-association-study-of-cognitive-function-in-chinese-adult-twins
#16
Chunsheng Xu, Dongfeng Zhang, Yili Wu, Xiaocao Tian, Zengchang Pang, Shuxia Li, Qihua Tan
Multiple loci or genes have been identified using genome-wide association studies mainly in western countries but with inconsistent results. No similar studies have been conducted in the world's largest and rapidly aging Chinese population. The paper aimed to identify the specific genetic variants associated with cognitive function in middle and old-aged Chinese dizygotic twins (DZ). Cognitive function was measured on 139 pairs of DZ by Montreal Cognitive Assessment. The subjects were genotyped at 1048575 SNP positions...
October 2017: Biogerontology
https://www.readbyqxmd.com/read/28730502/establishment-of-11-linked-x-str-loci-within-1-1-mb-to-assist-with-kinship-testing
#17
James Chun-I Lee, Chun-Yen Lin, Li-Chin Tsai, Yu-Jen Yu, Keng-Hsien Liao, Adrian Linacre, Hsing-Mei Hsieh
This report identifies and characterizes 10 novel short tandem repeat (STR) loci on the human X chromosome, all of which are within a range of 1.1 Mb. These newly characterized loci were developed to aid in kinship assignment when the X chromosome is specifically required. The repeat DNA sequences were identified initially using data in GenBank and are located immediately upstream and downstream from the previously described locus DXS6807. Only those loci with seven or more observed alleles were used for further study resulting in the identification of 10 new loci...
July 20, 2017: International Journal of Legal Medicine
https://www.readbyqxmd.com/read/28709755/validity-and-usefulness-of-the-hospital-anxiety-and-depression-scale-in-carers-of-people-with-dementia-evidence-from-confirmatory-factor-analysis-concurrent-validity-and-measurement-invariance-in-a-large-sample
#18
Joshua Stott, Martin Orrell, Georgina Charlesworth
OBJECTIVE: The Hospital Anxiety and Depression Scale (HADS) is a self-report measure of anxiety and depression. It is recommended for clinical assessment and has been used as the primary outcome in large clinical trials with carers of people with dementia. Its validity and utility have never been examined in this population. The current study addresses this. METHODS: In a secondary analysis of baseline data from a recent intervention trial (N = 284) with cross-validation in baseline data from a second trial (N = 230), the authors used confirmatory factor analysis to test whether a one-, two-, or three-factor structure best fit the data and used indices of model misspecification to respecify...
June 7, 2017: American Journal of Geriatric Psychiatry
https://www.readbyqxmd.com/read/28627836/dna-based-identification-of-a-carbonized-victim-by-kinship-analysis
#19
Raluca Dumache, Alexandru F Rogobete, Veronica Ciocan, Camelia O Muresan, Alexandra Enache
BACKGROUND: Our study will present the DNA identification of a carbonized victim using the DNA genotyping and by comparing the victim's DNA genotype with his parents' genotypes. METHODS: Blood obtained from the heart chambers was used for the identification of the carbonized body's genotype. Biological samples were also obtained by buccal swabs from his biological parents. We used an ABI 7500 real-time PCR system for quantification and a ProFlex PCR System to amplify...
May 1, 2017: Clinical Laboratory
https://www.readbyqxmd.com/read/28614352/a-novel-iterative-mixed-model-to-remap-three-complex-orthopedic-traits-in-dogs
#20
Meng Huang, Jessica J Hayward, Elizabeth Corey, Susan J Garrison, Gabriela R Wagner, Ursula Krotscheck, Kei Hayashi, Peter A Schweitzer, George Lust, Adam R Boyko, Rory J Todhunter
Hip dysplasia (HD), elbow dysplasia (ED), and rupture of the cranial (anterior) cruciate ligament (RCCL) are the most common complex orthopedic traits of dogs and all result in debilitating osteoarthritis. We reanalyzed previously reported data: the Norberg angle (a quantitative measure of HD) in 921 dogs, ED in 113 cases and 633 controls, and RCCL in 271 cases and 399 controls and their genotypes at ~185,000 single nucleotide polymorphisms. A novel fixed and random model with a circulating probability unification (FarmCPU) function, with marker-based principal components and a kinship matrix to correct for population stratification, was used...
2017: PloS One
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