Article
Biochemistry & Molecular Biology
Lisa Dickel, Peter Arcese, Pirmin Nietlisbach, Lukas F. Keller, Henrik Jensen, Jane M. Reid
Summary: Immigration into small recipient populations is expected to alleviate inbreeding and increase genetic variation, with immigrants typically being outbred and unrelated to existing natives and each other. This can facilitate population persistence through genetic and/or evolutionary rescue.
Article
Veterinary Sciences
Nora Laseca, Antonio Molina, Manuel Ramon, Mercedes Valera, Florencia Azcona, Ana Encina, Sebastian Demyda-Peyras
Summary: The study evaluated the impact of increased inbreeding levels on mare fertility, showing a negative correlation between whole-genome homozygosity and fertility estimated breeding values. The analysis also revealed chromosome-level variability and stronger correlations in a reduced dataset of the 10% most and least fertile individuals. Furthermore, the study identified genomic regions associated with fertility, including candidate genes related to oocyte and embryo development.
FRONTIERS IN VETERINARY SCIENCE
(2022)
Article
Biotechnology & Applied Microbiology
Ahmed M. Sallam, Henry Reyer, Klaus Wimmers, Francesca Bertolini, Adel Aboul-Naga, Camila U. Braz, Alaa Emara Rabee
Summary: Understanding the genomic features of local goat breeds in Egypt is crucial for successful breeding programs and conservation. This study identified genomic regions with selection signatures and detected runs of homozygosity, genomic inbreeding coefficients, and fixation index in different goat breeds. The results revealed differences in genomic structure and adaptation among breeds, providing valuable information for preservation and breeding programs.
Article
Agriculture, Dairy & Animal Science
Shen-He Liu, Xiao-Ya Ma, Faiz-Ul Hassan, Teng-Yun Gao, Ting-Xian Deng
Summary: The study used ROH analysis to evaluate genomic inbreeding patterns and levels in Mediterranean buffaloes, identifying ROH hotspots, candidate genes related to production traits, and genetic improvement potential through selective breeding.
JOURNAL OF DAIRY SCIENCE
(2022)
Article
Agriculture, Dairy & Animal Science
Bethany Pilon, Kelly Hinterneder, El Hamidi A. Hay, Breno Fragomeni
Summary: Inbreeding depression refers to the decreased fitness of offspring of closely related individuals, which is a common issue in the livestock industry. The relationship between homozygosity and decreased performance is complex and varies by chromosome. Evaluating inbreeding per individual regions of the genome and focusing on specific ROH with negative effects may help to avoid inbreeding depression and increase prediction accuracy in genomic selection programs.
Review
Genetics & Heredity
Mirte Bosse, Sam van Loon
Summary: This review highlights three different types of genetic erosion and their impact on the risk of species extinction. Quantifying genetic erosion can provide conservationists with an objective measure, but the current correlation between conservation status and genetic erosion is unclear.
FRONTIERS IN GENETICS
(2022)
Article
Agriculture, Dairy & Animal Science
Tomasz Szmatola, Artur Gurgul, Igor Jasielczuk, Ewa Oclon, Katarzyna Ropka-Molik, Monika Stefaniuk-Szmukier, Grazyna Polak, Iwona Tomczyk-Wrona, Monika Bugno-Poniewierska
Summary: This study examined the distribution of runs of homozygosity (ROH) in six different horse breeds, and found differences in the length, quantity, and frequency of ROH between breeds. The study also identified ROH islands, which may represent signals of recent selection events, and found several genes involved in important horse breed characteristics. The results can be used for further research in identifying markers unique to specific horse breed characteristics.
Article
Agriculture, Dairy & Animal Science
Xudong Wu, Ren Zhou, Yuanlang Wang, Wei Zhang, Xianrui Zheng, Guiying Zhao, Xiaodong Zhang, Zongjun Yin, Yueyun Ding
Summary: This study analyzed the genome of the local Chinese pig breed AQ pigs using resequencing technology and found that inbreeding levels were a concern and influenced by artificial selection. The study also identified genes related to immune biological processes in the ROH islands of AQ pigs.
Article
Biodiversity Conservation
Wilber Hernandez-Montiel, Nubia Noemi Cob-Calan, Lilia E. Cahuich-Tzuc, Jose A. Rueda, Jorge Quiroz-Valiente, Victor Meza-Villalvazo, Roberto Zamora-Bustillos
Summary: This study analyzed the runs of homozygosity, inbreeding coefficient, and effective population size in Pelibuey sheep, and compared them between two groups of ewes. The results revealed that the length distribution of runs of homozygosity and the genes associated with prolificacy were located near LINGO2, FLRT2, ADGRB3, DGKG, DGKE, DGKB, and DGKI. These findings are important for understanding the economic activity of this species.
Article
Biodiversity Conservation
Alison M. Flanagan, Bryce Masuda, Catherine E. Grueber, Jolene T. Sutton
Summary: Research on the Hawaiian Crow conservation breeding program revealed that inbreeding has a negative impact on offspring survival, with parental egg incubation improving survival rates. However, inbreeding does not significantly affect offspring reproductive success if they breed with distantly related mates. The study also identified a specific inbreeding threshold value that impacts survival rates, highlighting the importance of managing inbreeding in pedigree-managed populations.
CONSERVATION BIOLOGY
(2021)
Article
Genetics & Heredity
Anna Letko, Benoit Hedan, Anna Snell, Alexander C. Harris, Vidhya Jagannathan, Goran Andersson, Bodil S. Holst, Elaine A. Ostrander, Pascale Quignon, Catherine Andre, Tosso Leeb
Summary: Bernese mountain dogs are a large dog breed with a complex genomic architecture due to high levels of inbreeding and relatedness. They are multi-purpose companion and family dogs, but are predisposed to several genetic disorders. The analysis of whole-genome sequencing data revealed limited clustering between European and USA dogs and identified several fixed regions harboring genetic variants associated with morphological traits and diseases. The breed's strong predisposition to hematopoietic cancers may be attributed to the presence of immune cell-regulating genes in shared runs of homozygosity.
Article
Biotechnology & Applied Microbiology
Julie Colpitts, Philip Dunstan McLoughlin, Jocelyn Poissant
Summary: This study reveals that Sable Island horses are more inbred than domestic breeds, and most of this inbreeding is due to historical bottlenecks and founder effects rather than recent mating between close relatives. Unique ROH islands in the Sable Island population suggest adaptation to local selective pressures and/or strong genetic drift, highlighting the value of this population as a reservoir of equine genetic variation.
Article
Agriculture, Dairy & Animal Science
Shuaishuai Tian, Wendan Tang, Ziqi Zhong, Ziyi Wang, Xinfeng Xie, Hong Liu, Fuwen Chen, Jiaxin Liu, Yuxin Han, Yao Qin, Zhen Tan, Qian Xiao
Summary: In this study, the genetic variations and runs of homozygosity (ROH) of 235 Wenchang chickens were systematically investigated. The ROH of Wenchang chicken consists mainly of short segments, and the chickens exhibit relatively high genetic diversity. Additionally, several genes related to growth performance, stress resistance, meat traits, and fat deposition were identified. These findings are valuable for future breeding, conservation, and utilization of Wenchang and other chicken breeds.
Article
Biotechnology & Applied Microbiology
Maryam Nosrati, Hojjat Asadollahpour Nanaei, Arash Javanmard, Ali Esmailizadeh
Summary: The study revealed patterns, distributions, and levels of ROHs in the sheep genome, with most ROHs being small and the level of genomic inbreeding relatively low. The inbreeding coefficients based on ROH increased with distance from Southwest Asia, with maximum values detected in North European breeds. Multiple ROH hotspots were identified across 25 different autosomes, with most detected genes related to growth, body weight, meat production, wool production, and pigmentation.
Article
Agriculture, Dairy & Animal Science
Sarah M. Adams, Martijn F. L. Derks, Bayode O. Makanjuola, Gabriele Marras, Ben J. Wood, Christine F. Baes
Summary: The study aimed to detect and describe runs of homozygosity (ROH) in the turkey genome and compare pedigree-based inbreeding coefficients with genomic-based coefficients. Results showed that genomic-derived inbreeding coefficients were higher than coefficients estimated from pedigrees, providing a more comprehensive understanding of inbreeding in the turkey genome.
Article
Biochemistry & Molecular Biology
D. M. Leigh, H. E. L. Lischer, C. Grossen, L. F. Keller
MOLECULAR ECOLOGY RESOURCES
(2018)
Letter
Multidisciplinary Sciences
Marty Kardos, Pirmin Nietlisbach, Philip W. Hedrick
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2018)
Article
Multidisciplinary Sciences
Kristof Veitschegger, Laura A. B. Wilson, Beatrice Nussberger, Glauco Camenisch, Lukas F. Keller, Stephen Wroe, Marcelo R. Sanchez-Villagra
SCIENTIFIC REPORTS
(2018)
Article
Ecology
Erica Ponzi, Lukas F. Keller, Timothee Bonnet, Stefanie Muff
Article
Ecology
Matthew E. Wolak, Peter Arcese, Lukas F. Keller, Pirmin Nietlisbach, Jane M. Reid
Article
Ecology
Claudio Bozzuto, Iris Biebach, Stefanie Muff, Anthony R. Ives, Lukas F. Keller
NATURE ECOLOGY & EVOLUTION
(2019)
Article
Multidisciplinary Sciences
Christine Grossen, Frederic Guillaume, Lukas F. Keller, Daniel Croll
NATURE COMMUNICATIONS
(2020)
Article
Evolutionary Biology
Jane M. Reid, Peter Arcese, Pirmin Nietlisbach, Matthew E. Wolak, Stefanie Muff, Lisa Dickel, Lukas F. Keller
Summary: Ongoing adaptive evolution in declining populations relies on additive genetic variation in fitness, which can be influenced by gene flow. However, the effects of gene flow on local adaptive evolution have not been quantified in wild populations. This study on song sparrows reveals a migration-selection balance in maintaining additive genetic variation while preventing local adaptive evolutionary change.
Article
Biochemistry & Molecular Biology
Lisa Dickel, Peter Arcese, Pirmin Nietlisbach, Lukas F. Keller, Henrik Jensen, Jane M. Reid
Summary: Immigration into small recipient populations is expected to alleviate inbreeding and increase genetic variation, with immigrants typically being outbred and unrelated to existing natives and each other. This can facilitate population persistence through genetic and/or evolutionary rescue.
Article
Biodiversity Conservation
Jared A. Grummer, Tom R. Booker, Remi Matthey-Doret, Pirmin Nietlisbach, Andrea T. Thomaz, Michael C. Whitlock
Summary: With genetic health deteriorating due to climate change, assisted gene flow may provide necessary genetic variation for populations to adapt. However, the effectiveness of assisted gene flow depends on factors such as genotype fitness, genetic variation, and genetic control of adaptive traits.
CONSERVATION BIOLOGY
(2022)
Article
Multidisciplinary Sciences
Timothee Bonnet, Michael B. Morrissey, Pierre de Villemereuil, Susan C. Alberts, Peter Arcese, Liam D. Bailey, Stan Boutin, Patricia Brekke, Lauren J. N. Brent, Glauco Camenisch, Anne Charmantier, Tim H. Clutton-Brock, Andrew Cockburn, David W. Coltman, Alexandre Courtiol, Eve Davidian, Simon R. Evans, John G. Ewen, Marco Festa-Bianchet, Christophe de Franceschi, Lars Gustafsson, Oliver P. Honer, Thomas M. Houslay, Lukas F. Keller, Marta Manser, Andrew G. McAdam, Emily McLean, Pirmin Nietlisbach, Helen L. Osmond, Josephine M. Pemberton, Erik Postma, Jane M. Reid, Alexis Rutschmann, Anna W. Santure, Ben C. Sheldon, Jon Slate, Celine Teplitsky, Marcel E. Visser, Bettina Wachter, Loeske E. B. Kruuk
Summary: This study analyzed long-term data from 19 wild bird and mammal populations and found that additive genetic variance in relative fitness is often substantial and, on average, twice that of previous estimates. These rates of contemporary adaptive evolution can affect population dynamics and suggest that natural selection has the potential to partly mitigate effects of current environmental change.
Article
Evolutionary Biology
Jane M. Reid, Pirmin Nietlisbach, Matthew E. Wolak, Lukas F. Keller, Peter Arcese
Article
Agriculture, Dairy & Animal Science
Stefanie Muff, Alina K. Niskanen, Dilan Saatoglu, Lukas F. Keller, Henrik Jensen
GENETICS SELECTION EVOLUTION
(2019)