High-throughput sequencing reveals inbreeding depression in a natural population

Hoffman J, Simpson F, Patrice D, Rijks J, Kuiken T, Thorne M, Lacy R, Dasmahapatra K (2014)
Proceedings of the National Academy of Sciences of the United States of America 111(10): 3775-3780.

Zeitschriftenaufsatz | Veröffentlicht | Englisch
 
Download
Es wurden keine Dateien hochgeladen. Nur Publikationsnachweis!
Autor*in
Hoffman, JosephUniBi ; Simpson, Fraser; Patrice, David; Rijks, Jolianne; Kuiken, Thijs; Thorne, Michael; Lacy, Robert; Dasmahapatra, Kanchon
Abstract / Bemerkung
Proxy measures of genome-wide heterozygosity based on approximately 10 microsatellites have been used to uncover heterozygosity fitness correlations (HFCs) for a wealth of important fitness traits in natural populations. However, effect sizes are typically very small and the underlying mechanisms remain contentious, as a handful of markers usually provides little power to detect inbreeding. We therefore used restriction site associated DNA (RAD) sequencing to accurately estimate genome-wide heterozygosity, an approach transferrable to any organism. As a proof of concept, we first RAD sequenced oldfield mice (Peromyscus polionotus) from a known pedigree, finding strong concordance between the inbreeding coefficient and heterozygosity measured at 13,198 single-nucleotide polymorphisms (SNPs). When applied to a natural population of harbor seals (Phoca vitulina), a weak HFC for parasite infection based on 27 microsatellites strengthened considerably with 14,585 SNPs, the deviance explained by heterozygosity increasing almost fivefold to a remarkable 49%. These findings arguably provide the strongest evidence to date of an HFC being due to inbreeding depression in a natural population lacking a pedigree. They also suggest that under some circumstances heterozygosity may explain far more variation in fitness than previously envisaged.
Stichworte
single nucleotide polymorphism; RAD sequencing; heterozygosity fitness correlation; genetic variability; inbreeding
Erscheinungsjahr
2014
Zeitschriftentitel
Proceedings of the National Academy of Sciences of the United States of America
Band
111
Ausgabe
10
Seite(n)
3775-3780
ISSN
0027-8424
eISSN
1091-6490
Page URI
https://pub.uni-bielefeld.de/record/2663373

Zitieren

Hoffman J, Simpson F, Patrice D, et al. High-throughput sequencing reveals inbreeding depression in a natural population. Proceedings of the National Academy of Sciences of the United States of America. 2014;111(10):3775-3780.
Hoffman, J., Simpson, F., Patrice, D., Rijks, J., Kuiken, T., Thorne, M., Lacy, R., et al. (2014). High-throughput sequencing reveals inbreeding depression in a natural population. Proceedings of the National Academy of Sciences of the United States of America, 111(10), 3775-3780. doi:10.1073/pnas.1318945111
Hoffman, Joseph, Simpson, Fraser, Patrice, David, Rijks, Jolianne, Kuiken, Thijs, Thorne, Michael, Lacy, Robert, and Dasmahapatra, Kanchon. 2014. “High-throughput sequencing reveals inbreeding depression in a natural population”. Proceedings of the National Academy of Sciences of the United States of America 111 (10): 3775-3780.
Hoffman, J., Simpson, F., Patrice, D., Rijks, J., Kuiken, T., Thorne, M., Lacy, R., and Dasmahapatra, K. (2014). High-throughput sequencing reveals inbreeding depression in a natural population. Proceedings of the National Academy of Sciences of the United States of America 111, 3775-3780.
Hoffman, J., et al., 2014. High-throughput sequencing reveals inbreeding depression in a natural population. Proceedings of the National Academy of Sciences of the United States of America, 111(10), p 3775-3780.
J. Hoffman, et al., “High-throughput sequencing reveals inbreeding depression in a natural population”, Proceedings of the National Academy of Sciences of the United States of America, vol. 111, 2014, pp. 3775-3780.
Hoffman, J., Simpson, F., Patrice, D., Rijks, J., Kuiken, T., Thorne, M., Lacy, R., Dasmahapatra, K.: High-throughput sequencing reveals inbreeding depression in a natural population. Proceedings of the National Academy of Sciences of the United States of America. 111, 3775-3780 (2014).
Hoffman, Joseph, Simpson, Fraser, Patrice, David, Rijks, Jolianne, Kuiken, Thijs, Thorne, Michael, Lacy, Robert, and Dasmahapatra, Kanchon. “High-throughput sequencing reveals inbreeding depression in a natural population”. Proceedings of the National Academy of Sciences of the United States of America 111.10 (2014): 3775-3780.

77 Zitationen in Europe PMC

Daten bereitgestellt von Europe PubMed Central.

Nonequivalent lethal equivalents: Models and inbreeding metrics for unbiased estimation of inbreeding load.
Nietlisbach P, Muff S, Reid JM, Whitlock MC, Keller LF., Evol Appl 12(2), 2019
PMID: 30697338
Detailed insights into pan-European population structure and inbreeding in wild and hatchery Pacific oysters (Crassostrea gigas) revealed by genome-wide SNP data.
Vendrami DLJ, Houston RD, Gharbi K, Telesca L, Gutierrez AP, Gurney-Smith H, Hasegawa N, Boudry P, Hoffman JI., Evol Appl 12(3), 2019
PMID: 30847007
Comparing RADseq and microsatellites for estimating genetic diversity and relatedness - Implications for brown trout conservation.
Lemopoulos A, Prokkola JM, Uusi-Heikkilä S, Vasemägi A, Huusko A, Hyvärinen P, Koljonen ML, Koskiniemi J, Vainikka A., Ecol Evol 9(4), 2019
PMID: 30847096
Unexpected population fragmentation in an endangered seabird: the case of the Peruvian diving-petrel.
Cristofari R, Plaza P, Fernández CE, Trucchi E, Gouin N, Le Bohec C, Zavalaga C, Alfaro-Shigueto J, Luna-Jorquera G., Sci Rep 9(1), 2019
PMID: 30765805
Inbreeding depression causes reduced fecundity in Golden Retrievers.
Chu ET, Simpson MJ, Diehl K, Page RL, Sams AJ, Boyko AR., Mamm Genome 30(5-6), 2019
PMID: 31115595
Genomic Analysis Reveals Specific Patterns of Homozygosity and Heterozygosity in Inbred Pigs.
Wang L, Mu Y, Xu L, Li K, Han J, Wu T, Liu L, Gao Q, Xia Y, Hou G, Yang S, He X, Liu GE, Feng S., Animals (Basel) 9(6), 2019
PMID: 31159442
Heterozygosity at neutral and immune loci is not associated with neonatal mortality due to microbial infection in Antarctic fur seals.
Litzke V, Ottensmann M, Forcada J, Heitzmann L, Ivan Hoffman J., Ecol Evol 9(14), 2019
PMID: 31380066
Genomic consequences of intensive inbreeding in an isolated wolf population.
Kardos M, Åkesson M, Fountain T, Flagstad Ø, Liberg O, Olason P, Sand H, Wabakken P, Wikenros C, Ellegren H., Nat Ecol Evol 2(1), 2018
PMID: 29158554
Next-generation metrics for monitoring genetic erosion within populations of conservation concern.
Leroy G, Carroll EL, Bruford MW, DeWoody JA, Strand A, Waits L, Wang J., Evol Appl 11(7), 2018
PMID: 30026798
Runs of homozygosity: windows into population history and trait architecture.
Ceballos FC, Joshi PK, Clark DW, Ramsay M, Wilson JF., Nat Rev Genet 19(4), 2018
PMID: 29335644
Genotyping-by-sequencing for estimating relatedness in nonmodel organisms: Avoiding the trap of precise bias.
Attard CRM, Beheregaray LB, Möller LM., Mol Ecol Resour 18(3), 2018
PMID: 29160928
Contrasting geographic structure in evolutionarily divergent Lake Tanganyika catfishes.
Peart CR, Dasmahapatra KK, Day JJ., Ecol Evol 8(5), 2018
PMID: 29531686
Genetic rescue in an inbred Arctic fox (Vulpes lagopus) population.
Hasselgren M, Angerbjörn A, Eide NE, Erlandsson R, Flagstad Ø, Landa A, Wallén J, Norén K., Proc Biol Sci 285(1875), 2018
PMID: 29593110
Genetic structure of wild pea (Pisum sativum subsp. elatius) populations in the northern part of the Fertile Crescent reflects moderate cross-pollination and strong effect of geographic but not environmental distance.
Smýkal P, Trněný O, Brus J, Hanáček P, Rathore A, Roma RD, Pechanec V, Duchoslav M, Bhattacharyya D, Bariotakis M, Pirintsos S, Berger J, Toker C., PLoS One 13(3), 2018
PMID: 29579076
Monitoring age-related trends in genomic diversity of Australian lungfish.
Schmidt DJ, Fallon S, Roberts DT, Espinoza T, McDougall A, Brooks SG, Kind PK, Bond NR, Kennard MJ, Hughes JM., Mol Ecol (), 2018
PMID: 29989297
RAD Sequencing and a Hybrid Antarctic Fur Seal Genome Assembly Reveal Rapidly Decaying Linkage Disequilibrium, Global Population Structure and Evidence for Inbreeding.
Humble E, Dasmahapatra KK, Martinez-Barrio A, Gregório I, Forcada J, Polikeit AC, Goldsworthy SD, Goebel ME, Kalinowski J, Wolf JBW, Hoffman JI., G3 (Bethesda) 8(8), 2018
PMID: 29954843
Recent advances in conservation and population genomics data analysis.
Hendricks S, Anderson EC, Antao T, Bernatchez L, Forester BR, Garner B, Hand BK, Hohenlohe PA, Kardos M, Koop B, Sethuraman A, Waples RS, Luikart G., Evol Appl 11(8), 2018
PMID: PMC6099823
Estimating selection on the act of inbreeding in a population with strong inbreeding depression.
Troianou E, Huisman J, Pemberton JM, Walling CA., J Evol Biol 31(12), 2018
PMID: 30230082
A Bigger Toolbox: Biotechnology in Biodiversity Conservation.
Corlett RT., Trends Biotechnol 35(1), 2017
PMID: 27424151
Effects of a maternal high-fat diet on offspring behavioral and metabolic parameters in a rodent model.
Johnson SA, Javurek AB, Painter MS, Murphy CR, Conard CM, Gant KL, Howald EC, Ellersieck MR, Wiedmeyer CE, Vieira-Potter VJ, Rosenfeld CS., J Dev Orig Health Dis 8(1), 2017
PMID: 27609493
Meiotic recombination shapes precision of pedigree- and marker-based estimates of inbreeding.
Knief U, Kempenaers B, Forstmeier W., Heredity (Edinb) 118(3), 2017
PMID: 27804967
Inbreeding depression by environment interactions in a free-living mammal population.
Pemberton JM, Ellis PE, Pilkington JG, Bérénos C., Heredity (Edinb) 118(1), 2017
PMID: 27876804
Resources for phylogenomic analyses of Australian terrestrial vertebrates.
Bragg JG, Potter S, Bi K, Catullo R, Donnellan SC, Eldridge MDB, Joseph L, Keogh JS, Oliver P, Rowe KC, Moritz C., Mol Ecol Resour 17(5), 2017
PMID: 27863094
Low incidence of inbreeding in a long-lived primate population isolated for 75 years.
Widdig A, Muniz L, Minkner M, Barth Y, Bley S, Ruiz-Lambides A, Junge O, Mundry R, Kulik L., Behav Ecol Sociobiol 71(1), 2017
PMID: 28018027
RAD sequencing resolves fine-scale population structure in a benthic invertebrate: implications for understanding phenotypic plasticity.
Vendrami DL, Telesca L, Weigand H, Weiss M, Fawcett K, Lehman K, Clark MS, Leese F, McMinn C, Moore H, Hoffman JI., R Soc Open Sci 4(2), 2017
PMID: 28386419
Pedigree-based inbreeding coefficient explains more variation in fitness than heterozygosity at 160 microsatellites in a wild bird population.
Nietlisbach P, Keller LF, Camenisch G, Guillaume F, Arcese P, Reid JM, Postma E., Proc Biol Sci 284(1850), 2017
PMID: 28250184
Evidence of opposing fitness effects of parental heterozygosity and relatedness in a critically endangered marine turtle?
Phillips KP, Jorgensen TH, Jolliffe KG, Richardson DS., J Evol Biol 30(11), 2017
PMID: 28787533
Molecular Population Genetics of the Northern Elephant Seal Mirounga angustirostris.
Abadía-Cardoso A, Freimer NB, Deiner K, Garza JC., J Hered 108(6), 2017
PMID: 28821186
Host heterozygosity and genotype rarity affect viral dynamics in an avian subspecies complex.
Eastwood JR, Ribot RFH, Rollins LA, Buchanan KL, Walder K, Bennett ATD, Berg ML., Sci Rep 7(1), 2017
PMID: 29042596
Harnessing the power of RADseq for ecological and evolutionary genomics.
Andrews KR, Good JM, Miller MR, Luikart G, Hohenlohe PA., Nat Rev Genet 17(2), 2016
PMID: 26729255
Host-parasite coevolution: why changing population size matters.
Papkou A, Gokhale CS, Traulsen A, Schulenburg H., Zoology (Jena) 119(4), 2016
PMID: 27161157
Predictable allele frequency changes due to habitat fragmentation in the Glanville fritillary butterfly.
Fountain T, Nieminen M, Sirén J, Wong SC, Lehtonen R, Hanski I., Proc Natl Acad Sci U S A 113(10), 2016
PMID: 26903642
Inbreeding depression across the lifespan in a wild mammal population.
Huisman J, Kruuk LE, Ellis PA, Clutton-Brock T, Pemberton JM., Proc Natl Acad Sci U S A 113(13), 2016
PMID: 26979959
Genome-wide SNP loci reveal novel insights into koala (Phascolarctos cinereus) population variability across its range
Kjeldsen SR, Zenger KR, Leigh K, Ellis W, Tobey J, Phalen D, Melzer A, FitzGibbon S, Raadsma HW., Conserv Genet 17(2), 2016
PMID: IND605152329
Applying SNP-Derived Molecular Coancestry Estimates to Captive Breeding Programs.
Ivy JA, Putnam AS, Navarro AY, Gurr J, Ryder OA., J Hered 107(5), 2016
PMID: 27208150
A draft fur seal genome provides insights into factors affecting SNP validation and how to mitigate them
Humble E, A. Martinez‐Barrio, J. Forcada, P. N. Trathan, M. A. S. Thorne, M. Hoffmann, J. B. W. Wolf, J. I. Hoffman., Mol Ecol Resour 16(4), 2016
PMID: IND605237320
Genomic Methods Take the Plunge: Recent Advances in High-Throughput Sequencing of Marine Mammals.
Cammen KM, Andrews KR, Carroll EL, Foote AD, Humble E, Khudyakov JI, Louis M, McGowen MR, Olsen MT, Van Cise AM., J Hered 107(6), 2016
PMID: 27511190
Understanding Inbreeding Depression, Purging, and Genetic Rescue.
Hedrick PW, Garcia-Dorado A., Trends Ecol Evol 31(12), 2016
PMID: 27743611
Building strong relationships between conservation genetics and primary industry leads to mutually beneficial genomic advances.
Galla SJ, Buckley TR, Elshire R, Hale ML, Knapp M, McCallum J, Moraga R, Santure AW, Wilcox P, Steeves TE., Mol Ecol 25(21), 2016
PMID: 27641156
Genomics and the challenging translation into conservation practice.
Shafer AB, Wolf JB, Alves PC, Bergström L, Bruford MW, Brännström I, Colling G, Dalén L, De Meester L, Ekblom R, Fawcett KD, Fior S, Hajibabaei M, Hill JA, Hoezel AR, Höglund J, Jensen EL, Krause J, Kristensen TN, Krützen M, McKay JK, Norman AJ, Ogden R, Österling EM, Ouborg NJ, Piccolo J, Popović D, Primmer CR, Reed FA, Roumet M, Salmona J, Schenekar T, Schwartz MK, Segelbacher G, Senn H, Thaulow J, Valtonen M, Veale A, Vergeer P, Vijay N, Vilà C, Weissensteiner M, Wennerström L, Wheat CW, Zieliński P., Trends Ecol Evol 30(2), 2015
PMID: 25534246
What can livestock breeders learn from conservation genetics and vice versa?
Kristensen TN, Hoffmann AA, Pertoldi C, Stronen AV., Front Genet 6(), 2015
PMID: 25713584
Measuring individual inbreeding in the age of genomics: marker-based measures are better than pedigrees.
Kardos M, Luikart G, Allendorf FW., Heredity (Edinb) 115(1), 2015
PMID: 26059970
Heterozygote advantage at MHC DRB may influence response to infectious disease epizootics.
Osborne AJ, Pearson J, Negro SS, Chilvers BL, Kennedy MA, Gemmell NJ., Mol Ecol 24(7), 2015
PMID: 25728376
Multiple sexual ornaments signal heterozygosity in male blue tits
Ferrer ES, García‐Navas V, Bueno‐Enciso J, Sanz JJ, Ortego J., Biol J Linn Soc Lond 115(2), 2015
PMID: IND601259377
On some genetic consequences of social structure, mating systems, dispersal, and sampling.
Parreira BR, Chikhi L., Proc Natl Acad Sci U S A 112(26), 2015
PMID: 26080393
High levels of interspecific gene flow in an endemic cichlid fish adaptive radiation from an extreme lake environment.
Ford AG, Dasmahapatra KK, Rüber L, Gharbi K, Cezard T, Day JJ., Mol Ecol 24(13), 2015
PMID: 25997156
Directional dominance on stature and cognition in diverse human populations.
Joshi PK, Esko T, Mattsson H, Eklund N, Gandin I, Nutile T, Jackson AU, Schurmann C, Smith AV, Zhang W, Okada Y, Stančáková A, Faul JD, Zhao W, Bartz TM, Concas MP, Franceschini N, Enroth S, Vitart V, Trompet S, Guo X, Chasman DI, O'Connel JR, Corre T, Nongmaithem SS, Chen Y, Mangino M, Ruggiero D, Traglia M, Farmaki AE, Kacprowski T, Bjonnes A, van der Spek A, Wu Y, Giri AK, Yanek LR, Wang L, Hofer E, Rietveld CA, McLeod O, Cornelis MC, Pattaro C, Verweij N, Baumbach C, Abdellaoui A, Warren HR, Vuckovic D, Mei H, Bouchard C, Perry JRB, Cappellani S, Mirza SS, Benton MC, Broeckel U, Medland SE, Lind PA, Malerba G, Drong A, Yengo L, Bielak LF, Zhi D, van der Most PJ, Shriner D, Mägi R, Hemani G, Karaderi T, Wang Z, Liu T, Demuth I, Zhao JH, Meng W, Lataniotis L, van der Laan SW, Bradfield JP, Wood AR, Bonnefond A, Ahluwalia TS, Hall LM, Salvi E, Yazar S, Carstensen L, de Haan HG, Abney M, Afzal U, Allison MA, Amin N, Asselbergs FW, Bakker SJL, Barr RG, Baumeister SE, Benjamin DJ, Bergmann S, Boerwinkle E, Bottinger EP, Campbell A, Chakravarti A, Chan Y, Chanock SJ, Chen C, Chen YI, Collins FS, Connell J, Correa A, Cupples LA, Smith GD, Davies G, Dörr M, Ehret G, Ellis SB, Feenstra B, Feitosa MF, Ford I, Fox CS, Frayling TM, Friedrich N, Geller F, Scotland G, Gillham-Nasenya I, Gottesman O, Graff M, Grodstein F, Gu C, Haley C, Hammond CJ, Harris SE, Harris TB, Hastie ND, Heard-Costa NL, Heikkilä K, Hocking LJ, Homuth G, Hottenga JJ, Huang J, Huffman JE, Hysi PG, Ikram MA, Ingelsson E, Joensuu A, Johansson Å, Jousilahti P, Jukema JW, Kähönen M, Kamatani Y, Kanoni S, Kerr SM, Khan NM, Koellinger P, Koistinen HA, Kooner MK, Kubo M, Kuusisto J, Lahti J, Launer LJ, Lea RA, Lehne B, Lehtimäki T, Liewald DCM, Lind L, Loh M, Lokki ML, London SJ, Loomis SJ, Loukola A, Lu Y, Lumley T, Lundqvist A, Männistö S, Marques-Vidal P, Masciullo C, Matchan A, Mathias RA, Matsuda K, Meigs JB, Meisinger C, Meitinger T, Menni C, Mentch FD, Mihailov E, Milani L, Montasser ME, Montgomery GW, Morrison A, Myers RH, Nadukuru R, Navarro P, Nelis M, Nieminen MS, Nolte IM, O'Connor GT, Ogunniyi A, Padmanabhan S, Palmas WR, Pankow JS, Patarcic I, Pavani F, Peyser PA, Pietilainen K, Poulter N, Prokopenko I, Ralhan S, Redmond P, Rich SS, Rissanen H, Robino A, Rose LM, Rose R, Sala C, Salako B, Salomaa V, Sarin AP, Saxena R, Schmidt H, Scott LJ, Scott WR, Sennblad B, Seshadri S, Sever P, Shrestha S, Smith BH, Smith JA, Soranzo N, Sotoodehnia N, Southam L, Stanton AV, Stathopoulou MG, Strauch K, Strawbridge RJ, Suderman MJ, Tandon N, Tang ST, Taylor KD, Tayo BO, Töglhofer AM, Tomaszewski M, Tšernikova N, Tuomilehto J, Uitterlinden AG, Vaidya D, van Hylckama Vlieg A, van Setten J, Vasankari T, Vedantam S, Vlachopoulou E, Vozzi D, Vuoksimaa E, Waldenberger M, Ware EB, Wentworth-Shields W, Whitfield JB, Wild S, Willemsen G, Yajnik CS, Yao J, Zaza G, Zhu X, Project TBJ, Salem RM, Melbye M, Bisgaard H, Samani NJ, Cusi D, Mackey DA, Cooper RS, Froguel P, Pasterkamp G, Grant SFA, Hakonarson H, Ferrucci L, Scott RA, Morris AD, Palmer CNA, Dedoussis G, Deloukas P, Bertram L, Lindenberger U, Berndt SI, Lindgren CM, Timpson NJ, Tönjes A, Munroe PB, Sørensen TIA, Rotimi CN, Arnett DK, Oldehinkel AJ, Kardia SLR, Balkau B, Gambaro G, Morris AP, Eriksson JG, Wright MJ, Martin NG, Hunt SC, Starr JM, Deary IJ, Griffiths LR, Tiemeier H, Pirastu N, Kaprio J, Wareham NJ, Pérusse L, Wilson JG, Girotto G, Caulfield MJ, Raitakari O, Boomsma DI, Gieger C, van der Harst P, Hicks AA, Kraft P, Sinisalo J, Knekt P, Johannesson M, Magnusson PKE, Hamsten A, Schmidt R, Borecki IB, Vartiainen E, Becker DM, Bharadwaj D, Mohlke KL, Boehnke M, van Duijn CM, Sanghera DK, Teumer A, Zeggini E, Metspalu A, Gasparini P, Ulivi S, Ober C, Toniolo D, Rudan I, Porteous DJ, Ciullo M, Spector TD, Hayward C, Dupuis J, Loos RJF, Wright AF, Chandak GR, Vollenweider P, Shuldiner A, Ridker PM, Rotter JI, Sattar N, Gyllensten U, North KE, Pirastu M, Psaty BM, Weir DR, Laakso M, Gudnason V, Takahashi A, Chambers JC, Kooner JS, Strachan DP, Campbell H, Hirschhorn JN, Perola M, Polašek O, Wilson JF., Nature 523(7561), 2015
PMID: 26131930
Genetic diversity is related to climatic variation and vulnerability in threatened bull trout
Kovach RP, Muhlfeld CC, Wade AA, Hand BK, Whited DC, DeHaan PW, Al‐Chokhachy R, Luikart G., Global change biology. 21(7), 2015
PMID: IND603427984
Generation-based life table analysis reveals manifold effects of inbreeding on the population fitness in Plutella xylostella.
Peng L, Zou M, Ren N, Xie M, Vasseur L, Yang Y, He W, Yang G, Gurr GM, Hou Y, You S, You M., Sci Rep 5(), 2015
PMID: 26227337
Chemical fingerprints encode mother-offspring similarity, colony membership, relatedness, and genetic quality in fur seals.
Stoffel MA, Caspers BA, Forcada J, Giannakara A, Baier M, Eberhart-Phillips L, Müller C, Hoffman JI., Proc Natl Acad Sci U S A 112(36), 2015
PMID: 26261311
Flight-induced changes in gene expression in the Glanville fritillary butterfly.
Kvist J, Mattila AL, Somervuo P, Ahola V, Koskinen P, Paulin L, Salmela L, Fountain T, Rastas P, Ruokolainen A, Taipale M, Holm L, Auvinen P, Lehtonen R, Frilander MJ, Hanski I., Mol Ecol 24(19), 2015
PMID: 26331775
Local effects drive heterozygosity-fitness correlations in an outcrossing long-lived tree.
Rodríguez-Quilón I, Santos-del-Blanco L, Grivet D, Jaramillo-Correa JP, Majada J, Vendramin GG, Alía R, González-Martínez SC., Proc Biol Sci 282(1820), 2015
PMID: 26631567
De novo assembly of the dual transcriptomes of a polymorphic raptor species and its malarial parasite.
Pauli M, Chakarov N, Rupp O, Kalinowski J, Goesmann A, Sorenson MD, Krüger O, Hoffman JI., BMC Genomics 16(), 2015
PMID: 26645667
Transcriptome Characterization for Non-Model Endangered Lycaenids, Protantigius superans and Spindasis takanosis, Using Illumina HiSeq 2500 Sequencing.
Patnaik BB, Hwang HJ, Kang SW, Park SY, Wang TH, Park EB, Chung JM, Song DK, Kim C, Kim S, Lee JB, Jeong HC, Park HS, Han YS, Lee YS., Int J Mol Sci 16(12), 2015
PMID: 26694362
Phocine distemper virus: current knowledge and future directions.
Duignan PJ, Van Bressem MF, Baker JD, Barbieri M, Colegrove KM, De Guise S, de Swart RL, Di Guardo G, Dobson A, Duprex WP, Early G, Fauquier D, Goldstein T, Goodman SJ, Grenfell B, Groch KR, Gulland F, Hall A, Jensen BA, Lamy K, Matassa K, Mazzariol S, Morris SE, Nielsen O, Rotstein D, Rowles TK, Saliki JT, Siebert U, Waltzek T, Wellehan JF., Viruses 6(12), 2014
PMID: 25533658

44 References

Daten bereitgestellt von Europe PubMed Central.

Inbreeding depression and its evolutionary consequences
Charlesworth D, Charlesworth B., 1987
An experimental study of inbreeding depression in a natural habitat.
Jimenez JA, Hughes KA, Alaks G, Graham L, Lacy RC., Science 266(5183), 1994
PMID: 7939661
Male-male competition magnifies inbreeding depression in wild house mice.
Meagher S, Penn DJ, Potts WK., Proc. Natl. Acad. Sci. U.S.A. 97(7), 2000
PMID: 10716731
Inbreeding depression in red deer calves.
Walling CA, Nussey DH, Morris A, Clutton-Brock TH, Kruuk LE, Pemberton JM., BMC Evol. Biol. 11(), 2011
PMID: 22039837
Heterozygosity-fitness correlations within inbreeding classes: Local or genome-wide effects?
Hansson B, Westerberg L., 2007
Heterozygosity-fitness correlations: new perspectives on old problems.
David P., Heredity (Edinb) 80 ( Pt 5)(), 1998
PMID: 9650277
On the correlation between heterozygosity and fitness in natural populations.
Hansson B, Westerberg L., Mol. Ecol. 11(12), 2002
PMID: 12453232
Birth weight and neonatal survival of harbour seal pups are positively correlated with genetic variation measured by microsatellites
Coltman DW, Bowen WD, Wright JM., 1998
Parasite-mediated selection against inbred Soay sheep in a free-living, island population.
Coltman DW, Pilkington JG, Smith JA, Pemberton JM., Evolution 53(4), 1999
PMID: IND22030991
Inbreeding depression influences lifetime breeding success in a wild population of red deer (Cervus elaphus)
Slate J, Kruuk LEB, Marshall TC, Pemberton JM, Clutton-Brock TH., 2000
Male heterozygosity predicts territory size, song structure and reproductive success in a cooperatively breeding bird
Seddon N, Amos W, Mulder RA, Tobias JA., 2004
Sexual selection and individual genetic diversity in a songbird
Marshall RC, Buchanan KL, Catchpole CK., 2003
Female fur seals show active choice for males that are heterozygous and unrelated.
Hoffman JI, Forcada J, Trathan PN, Amos W., Nature 445(7130), 2007
PMID: 17287726
Does heterozygosity estimate inbreeding in real populations?
Balloux F, Amos W, Coulson T., Mol. Ecol. 13(10), 2004
PMID: 15367117
Heterozygosity-fitness correlations: a time for reappraisal.
Szulkin M, Bierne N, David P., Evolution 64(5), 2010
PMID: 20148954
Rapid SNP discovery and genetic mapping using sequenced RAD markers.
Baird NA, Etter PD, Atwood TS, Currey MC, Shiver AL, Lewis ZA, Selker EU, Cresko WA, Johnson EA., PLoS ONE 3(10), 2008
PMID: 18852878
Estimating levels of inbreeding using AFLP markers.
Dasmahapatra KK, Lacy RC, Amos W., Heredity (Edinb) 100(3), 2007
PMID: 17987055
Heterozygosity and lungworm burden in harbour seals (Phoca vitulina).
Rijks JM, Hoffman JI, Kuiken T, Osterhaus AD, Amos W., Heredity (Edinb) 100(6), 2008
PMID: 18398424
Reliable selfing rate estimates from imperfect population genetic data.
David P, Pujol B, Viard F, Castella V, Goudet J., Mol. Ecol. 16(12), 2007
PMID: 17561907
Estimating genome-wide heterozygosity: effects of demographic history and marker type.
Miller JM, Malenfant RM, David P, Davis CS, Poissant J, Hogg JT, Festa-Bianchet M, Coltman DW., Heredity (Edinb) 112(3), 2013
PMID: 24149650
On the estimation of genome-wide heterozygosity using molecular markers.
Dewoody YD, Dewoody JA., J. Hered. 96(2), 2004
PMID: 15618305
Heterozygosity-fitness correlations in zebra finches: microsatellite markers can be better than their reputation.
Forstmeier W, Schielzeth H, Mueller JC, Ellegren H, Kempenaers B., Mol. Ecol. 21(13), 2012
PMID: 22554318
SNP ascertainment bias in population genetic analyses: Why it is important, and how to correct it
Lachance L, Tishkoff SA., 2013
Ascertainment bias in studies of human genome-wide polymorphism.
Clark AG, Hubisz MJ, Bustamante CD, Williamson SH, Nielsen R., Genome Res. 15(11), 2005
PMID: 16251459

Lynn WJ., 2000
Pleistocene population expansions of Antarctic seals.
Curtis C, Stewart BS, Karl SA., Mol. Ecol. 18(10), 2009
PMID: 19344354
Mitochondrial DNA sequence data of the Cape fur seal (Arctocephalus pusillus pusillus) suggest that population numbers maybe affected by climatic shifts
Matthee CA, Fourie F, Oosthuizen WH, Meyer MA, Tolley KA., 2006
Structure and amount of genetic variation at minisatellite loci within the subspecies complex of Phoca vitulina (the harbour seal).
Kappe AL, Bijlsma R, Osterhaus AD, van Delden W, van de Zande L., Heredity (Edinb) 78 ( Pt 5)(), 1997
PMID: 9172395
Comparing molecular measures for detecting inbreeding depression
Slate J, Pemberton JM., 2002
A quantitative review of heterozygosity-fitness correlations in animal populations.
Chapman JR, Nakagawa S, Coltman DW, Slate J, Sheldon BC., Mol. Ecol. 18(13), 2009
PMID: 19500255
Extreme natal philopatry in female Antarctic fur seals (Arctocephalus gazella)
Hoffman JI, Forcada J., 2012
Estimation of the inbreeding coefficient through use of genomic data.
Leutenegger AL, Prum B, Genin E, Verny C, Lemainque A, Clerget-Darpoux F, Thompson EA., Am. J. Hum. Genet. 73(3), 2003
PMID: 12900793
Variation in actual relationship as a consequence of Mendelian sampling and linkage
Hill WG, Weir BS., 2011
Measuring inbreeding depression in the wild: the old ways are the best.
Pemberton J., Trends Ecol. Evol. (Amst.) 19(12), 2004
PMID: 16701322
Stacks: building and genotyping Loci de novo from short-read sequences.
Catchen JM, Amores A, Hohenlohe P, Cresko W, Postlethwait JH., G3 (Bethesda) 1(3), 2011
PMID: 22384329
Fast and accurate short read alignment with Burrows-Wheeler transform.
Li H, Durbin R., Bioinformatics 25(14), 2009
PMID: 19451168
The Genome Analysis Toolkit: a MapReduce framework for analyzing next-generation DNA sequencing data.
McKenna A, Hanna M, Banks E, Sivachenko A, Cibulskis K, Kernytsky A, Garimella K, Altshuler D, Gabriel S, Daly M, DePristo MA., Genome Res. 20(9), 2010
PMID: 20644199
Rhh: An R extension for estimating multilocus heterozygosity and heterozygosity-heterozygosity correlation
Alho J, Valimaki K, Merila J., 2010
R: A language for data analysis and graphics
Ihaka R, Gentleman R., 1996
Export

Markieren/ Markierung löschen
Markierte Publikationen

Open Data PUB

Web of Science

Dieser Datensatz im Web of Science®
Quellen

PMID: 24586051
PubMed | Europe PMC

Suchen in

Google Scholar