Professor Jon Slate

School of Biosciences

Professor of Evolutionary Genetics

j.slate@sheffield.ac.uk
+44 114 222 0048

B85, Alfred Denny Building

Full contact details

Professor Jon Slate
School of Biosciences
B85
Alfred Denny Building
Western Bank
Sheffield
S10 2TN

Profile

Professor of Evolutionary Genetics: School of Biosciences, University of Sheffield (2012-)
Lecturer, Senior Lecturer, Reader: University of Sheffield (2002-12)
Royal Society travel fellowship / Staff Scientist: Univ. of Otago / AgResearch, New Zealand (2000-02)
PhD: University of Edinburgh (1996-2000)
Graduate RA: University of Cambridge (1992-95)
BSc (Genetics): University of Manchester (1989-92)

Research interests

Genetic architecture and evolution of phenotypic variation in wild populations
Evolutionary genetics and genomics
Epigenetics

My group studies the evolutionary genetics of adaptation. We combine molecular quantitative genetic approaches with data from long-term field studies (I work closely with evolutionary ecologists) to explore the maintenance of genetic variation and the processes involved in evolutionary change. Our work typically involves techniques such as genome wide association scans (GWAS) and genomic prediction. These techniques are more often associated with human genetics and animal and plant breeding, but they are powerful ways to understand microevolution. More recently we have begun to study the relationship between epigenetic variation, quantitative genetic variation and ageing.

Publications

Show: Featured publications All publications

Featured publications

Journal articles

Bonnet T, Morrissey MB, de Villemereuil P, Alberts SC, Arcese P, Bailey LD, Boutin S, Brekke P, Brent LJN, Camenisch G , Charmantier A et al (2022) Genetic variance in fitness indicates rapid contemporary adaptive evolution in wild animals. Science, 376(6596), 1012-1016. View this article in WRRO
Hunter DC, Ashraf B, Bérénos C, Ellis PA, Johnston SE, Wilson AJ, Pilkington JG, Pemberton JM & Slate J (2022) Using genomic prediction to detect microevolutionary change of a quantitative trait. Proceedings of the Royal Society B: Biological Sciences, 289(1974). View this article in WRRO
Ashraf B, Hunter DC, Bérénos C, Ellis PA, Johnston SE, Pilkington JG, Pemberton JM & Slate J (2021) Genomic prediction in the wild: A case study in Soay sheep. Molecular Ecology. View this article in WRRO
Bosse M, Spurgin LG, Laine VN, Cole EF, Firth JA, Gienapp P, Gosler AG, McMahon K, Poissant J, Verhagen I , Groenen MAM et al (2017) Recent natural selection causes adaptive evolution of an avian polygenic trait. Science, 358(6361), 365-368. View this article in WRRO
Kim K-W, Bennison C, Hemmings N, Brookes L, Hurley LL, Griffith SC, Burke T, Birkhead TR & Slate J (2017) A sex-linked supergene controls sperm morphology and swimming speed in a songbird. Nature Ecology and Evolution, 1, 1168-1176. View this article in WRRO
Mundy NI, Stapley J, Bennison C, Tucker R, Twyman H, Kim K-W, Burke T, Birkhead TR, Andersson S & Slate J (2016) Red Carotenoid Coloration in the Zebra Finch Is Controlled by a Cytochrome P450 Gene Cluster. Current Biology, 26(11), 1435-1440. View this article in WRRO
Laine VN, Gossmann TI, Schachtschneider KM, Garroway CJ, Madsen O, Verhoeven KJF, de Jager V, Megens H-J, Warren WC, Minx P , Crooijmans RPMA et al (2016) Evolutionary signals of selection on cognition from the great tit genome and methylome. Nature Communications, 7. View this article in WRRO
Küpper C, Stocks M, Risse JE, dos Remedios N, Farrell LL, McRae SB, Morgan TC, Karlionova N, Pinchuk P, Verkuil YI , Kitaysky AS et al (2015) A supergene determines highly divergent male reproductive morphs in the ruff. Nature Genetics, 48(1), 79-83. View this article in WRRO
Johnston SE, Gratten J, Berenos C, Pilkington JG, Pemberton JM, Clutton-Brock TH & Slate J (2013) Life history trade-offs at a single locus maintain sexually selected genetic variation. Nature.
Slate J (2013) From Beavis To Beak Color: A Simulation Study To Examine How Much Qtl Mapping Can Reveal About The Genetic Architecture Of Quantitative Traits. Evolution.
Rodriguez-Munoz R, Bretman A, Slate J, Walling CA & Tregenza T (2010) Natural and Sexual Selection in a Wild Insect Population. SCIENCE, 328(5983), 1269-1272.
Warren WC, Clayton DF, Ellegren H, Arnold AP, Hillier LW, Künstner A, Searle S, White S, Vilella AJ, Fairley S , Heger A et al (2010) The genome of a songbird.. Nature, 464(7289), 757-762.
Stapley J, Birkhead TR, Burke T & Slate J (2010) Pronounced inter- and intrachromosomal variation in linkage disequilibrium across the zebra finch genome.. Genome Res, 20(4), 496-502.
Stapley J, Birkhead TR, Burke T & Slate J (2008) A linkage map of the zebra finch Taeniopygia guttata provides new insights into avian genome evolution.. Genetics, 179(1), 651-667.
Gratten J, Wilson AJ, McRae AF, Beraldi D, Visscher PM, Pemberton JM & Slate J (2008) A localized negative genetic correlation constrains microevolution of coat color in wild sheep.. Science, 319(5861), 318-320.
Slate J, David P, Dodds KG, Veenvliet BA, Glass BC, Broad TE & McEwan JC (2004) Understanding the relationship between the inbreeding coefficient and multilocus heterozygosity: theoretical expectations and empirical data.. Heredity (Edinb), 93(3), 255-265.
Coltman DW & Slate J (2003) Microsatellite measures of inbreeding: a meta-analysis.. Evolution, 57(5), 971-983.
Kijas JW, Lenstra JA, Hayes B, Boitard S, Porto Neto LR, San Cristobal M, Servin B, McCulloch R, Whan V, Gietzen K , Paiva S et al () Genome-Wide Analysis of the World's Sheep Breeds Reveals High Levels of Historic Mixture and Strong Recent Selection. PLoS Biology, 10(2), e1001258-e1001258. View this article in WRRO

All publications

Journal articles

de Carvalho CF, Slate J, Villoutreix R, Soria‐Carrasco V, Riesch R, Feder JL, Gompert Z & Nosil P (2023) DNA methylation differences between stick insect ecotypes. Molecular Ecology, 32(24), 6809-6823.
Gauzere J, Pemberton JM, Slate J, Morris A, Morris S, Walling CA & Johnston SE (2023) A polygenic basis for birth weight in a wild population of red deer (Cervus elaphus). G3 Genes|Genomes|Genetics.
Bonnet T, Morrissey MB, de Villemereuil P, Alberts SC, Arcese P, Bailey LD, Boutin S, Brekke P, Brent LJN, Camenisch G , Charmantier A et al (2022) Genetic variance in fitness indicates rapid contemporary adaptive evolution in wild animals. Science, 376(6596), 1012-1016. View this article in WRRO
Hunter DC, Ashraf B, Bérénos C, Ellis PA, Johnston SE, Wilson AJ, Pilkington JG, Pemberton JM & Slate J (2022) Using genomic prediction to detect microevolutionary change of a quantitative trait. Proceedings of the Royal Society B: Biological Sciences, 289(1974). View this article in WRRO
Ashraf B, Hunter DC, Bérénos C, Ellis PA, Johnston SE, Pilkington JG, Pemberton JM & Slate J (2021) Genomic prediction in the wild: A case study in Soay sheep. Molecular Ecology. View this article in WRRO
Leedale AE, Simeoni M, Sharp SP, Green JP, Slate J, Lachlan RF, Robinson EJH & Hatchwell BJ (2020) Cost, risk, and avoidance of inbreeding in a cooperatively breeding bird. Proceedings of the National Academy of Sciences. View this article in WRRO
Zwoinska MK, Rodrigues LR, Slate J & Snook RR (2020) Phenotypic responses to and genetic architecture of sterility following exposure to sub-lethal temperature during development. Frontiers in Genetics, 11. View this article in WRRO
Hagen IJ, Lien S, Billing AM, Elgvin TO, Trier C, Niskanen AK, Tarka M, Slate J, Sætre G & Jensen H (2020) A genome‐wide linkage map for the house sparrow (Passer domesticus) provides insights into the evolutionary history of the avian genome. Molecular Ecology Resources, 20(2), 544-559. View this article in WRRO
Rodríguez-Muñoz R, Hopwood P, Fisher D, Skicko I, Tucker R, Woodcock K, Slate J, Walling C & Tregenza T (2019) Older males attract more females but get fewer matings in a wild field cricket. Animal Behaviour, 153, 1-14. View this article in WRRO
Bosse M, Spurgin LG, Laine VN, Cole EF, Firth JA, Gienapp P, Gosler AG, McMahon K, Poissant J, Verhagen I , Groenen MAM et al (2019) Response to Perrier and Charmantier : on the importance of time scales when studying adaptive evolution. Evolution Letters, 3(3), 248-253. View this article in WRRO
da Silva VH, Laine VN, Bosse M, Spurgin LG, Derks MFL, van Oers K, Dibbits B, Slate J, Crooijmans RPMA, Visser ME & Groenen MAM (2019) The genomic complexity of a large inversion in great tits. Genome Biology and Evolution. View this article in WRRO
Hunter D & Slate J (2019) Understanding genetic changes between generations. Proceedings of the National Academy of Sciences, 116(6), 1834-1836. View this article in WRRO
Kim J-M, Santure AW, Barton HJ, Quinn JL, Cole EF, Visser ME, Sheldon BC, Groenen MAM, van Oers K & Slate J (2018) A high-density SNP chip for genotyping great tit (Parus major) populations and its application to studying the genetic architecture of exploration behaviour. Molecular Ecology Resources, 18(4), 877-891. View this article in WRRO
Corcoran P, Gossmann TI, Barton HJ, The Great Tit HapMap Consortium , Slate J & Zeng K (2017) Determinants of the Efficacy of Natural Selection on Coding and Noncoding Variability in Two Passerine Species. Genome Biology and Evolution, 9(11), 2987-3007. View this article in WRRO
Bosse M, Spurgin LG, Laine VN, Cole EF, Firth JA, Gienapp P, Gosler AG, McMahon K, Poissant J, Verhagen I , Groenen MAM et al (2017) Recent natural selection causes adaptive evolution of an avian polygenic trait. Science, 358(6361), 365-368. View this article in WRRO
Radersma R, Garroway CJ, Santure AW, de Cauwer I, Farine DR, Slate J & Sheldon BC (2017) Social and spatial effects on genetic variation between foraging flocks in a wild bird population. Molecular Ecology, 26(20), 5807-5819. View this article in WRRO
Kim K-W, Bennison C, Hemmings N, Brookes L, Hurley LL, Griffith SC, Burke T, Birkhead TR & Slate J (2017) A sex-linked supergene controls sperm morphology and swimming speed in a songbird. Nature Ecology and Evolution, 1, 1168-1176. View this article in WRRO
Slate J (2017) Introducing Evolution Letters. Evolution Letters, 1(1), 4-5. View this article in WRRO
Slate J (2017) Robust inference of genetic architecture in mapping studies.. Molecular Ecology, 26(6), 1453-1455. View this article in WRRO
Bennison C, Hemmings N, Brookes L, Slate J & Birkhead T (2016) Sperm morphology, adenosine triphosphate (ATP) concentration and swimming velocity: Unexpected relationships in a passerine bird. Proceedings of the Royal Society B: Biological Sciences, 283(1837). View this article in WRRO
Poissant J, Morrissey MB, Gosler AG, Slate J & Sheldon BC (2016) Multivariate selection and intersexual genetic constraints in a wild bird population.. J Evol Biol. View this article in WRRO
Mundy NI, Stapley J, Bennison C, Tucker R, Twyman H, Kim K-W, Burke T, Birkhead TR, Andersson S & Slate J (2016) Red Carotenoid Coloration in the Zebra Finch Is Controlled by a Cytochrome P450 Gene Cluster. Current Biology, 26(11), 1435-1440. View this article in WRRO
Johnston SE, Berenos C, Slate J & Pemberton JM (2016) Conserved Genetic Architecture Underlying Individual Recombination Rate Variation in a Wild Population of Soay Sheep (Ovis aries). Genetics, 203(1), 583-598. View this article in WRRO
Laine VN, Gossmann TI, Schachtschneider KM, Garroway CJ, Madsen O, Verhoeven KJF, de Jager V, Megens H-J, Warren WC, Minx P , Crooijmans RPMA et al (2016) Evolutionary signals of selection on cognition from the great tit genome and methylome. Nature Communications, 7. View this article in WRRO
Santure AW, Poissant J, De Cauwer I, van Oers K, Robinson MR, Quinn JL, Groenen MAM, Visser ME, Sheldon BC & Slate J (2015) Replicated analysis of the genetic architecture of quantitative traits in two wild great tit populations. Molecular Ecology, 24(24), 6148-6162. View this article in WRRO
Küpper C, Stocks M, Risse JE, dos Remedios N, Farrell LL, McRae SB, Morgan TC, Karlionova N, Pinchuk P, Verkuil YI , Kitaysky AS et al (2015) A supergene determines highly divergent male reproductive morphs in the ruff. Nature Genetics, 48(1), 79-83. View this article in WRRO
Nietlisbach P, Camenisch G, Bucher T, Slate J, Keller LF & Postma E (2015) A microsatellite-based linkage map for song sparrows (Melospiza melodia). Molecular Ecology Resources, 15(6), 1486-1496.
Comeault AA, Flaxman SM, Riesch R, Curran E, Soria-Carrasco V, Gompert Z, Farkas TE, Muschick M, Parchman TL, Schwander T , Slate J et al (2015) Selection on a Genetic Polymorphism Counteracts Ecological Speciation in a Stick Insect. Current Biology, 25(15), 1975-1981.
Veltsos P, Gregson E, Morrissey B, Slate J, Hoikkala A, Butlin RK & Ritchie MG (2015) The genetic architecture of sexually selected traits in two natural populations of Drosophila montana. Heredity, 115(6), 565-572.
Uusi-Heikkilä S, Whiteley AR, Kuparinen A, Matsumura S, Venturelli PA, Wolter C, Slate J, Primmer CR, Meinelt T, Killen SS , Bierbach D et al (2015) The evolutionary legacy of size-selective harvesting extends from genes to populations. Evolutionary Applications, 8(6), 597-620. View this article in WRRO
Firth JA, Hadfield JD, Santure AW, Slate J & Sheldon BC (2015) The influence of nonrandom extra-pair paternity on heritability estimates derived from wild pedigrees. Evolution, 69(5), 1336-1344. View this article in WRRO
Tyukmaeva VI, Veltsos P, Slate J, Gregson E, Kauranen H, Kankare M, Ritchie MG, Butlin RK & Hoikkala A (2015) Localization of quantitative trait loci for diapause and other photoperiodically regulated life history traits important in adaptation to seasonally varying environments. Molecular Ecology, 24(11), 2809-2819.
Bennison C, Hemmings N, Slate J & Birkhead T (2015) Long sperm fertilize more eggs in a bird. Proceedings of the Royal Society B: Biological Sciences, 282(1799). View this article in WRRO
Sepil I, Radersma R, Santure AW, De Cauwer I, Slate J & Sheldon BC (2015) No evidence for MHC class I-based disassortative mating in a wild population of great tits. Journal of Evolutionary Biology, 28(3), 642-654.
Gossmann TI, Santure AW, Sheldon BC, Slate J & Zeng K (2014) Highly Variable Recombinational Landscape Modulates Efficacy of Natural Selection in Birds. Genome Biology and Evolution, 6(8), 2061-2075. View this article in WRRO
van Oers K, Santure AW, De Cauwer I, van Bers NEM, Crooijmans RPMA, Sheldon BC, Visser ME, Slate J & Groenen MAM (2014) Replicated high-density genetic maps of two great tit populations reveal fine-scale genomic departures from sex-equal recombination rates.. Heredity (Edinb), 112(3), 307-316. View this article in WRRO
Farrell LL, Burke T, Slate J, McRae SB & Lank DB (2013) Genetic mapping of the female mimic morph locus in the ruff. BMC Genetics, 14. View this article in WRRO
Farrell LL, Burke T, Slate J & Lank DB (2013) A first-generation microsatellite linkage map of the ruff. Ecology and Evolution, 3(14), 4631-4640. View this article in WRRO
Johnston SE, Gratten J, Berenos C, Pilkington JG, Pemberton JM, Clutton-Brock TH & Slate J (2013) Life history trade-offs at a single locus maintain sexually selected genetic variation. Nature.
Santure AW, De Cauwer I, Robinson MR, Poissant J, Sheldon BC & Slate J (2013) Genomic dissection of variation in clutch size and egg mass in a wild great tit (Parus major) population.. Mol Ecol, 22(15), 3949-3962.
Robinson MR, Santure AW, Decauwer I, Sheldon BC & Slate J (2013) Partitioning of genetic variation across the genome using multimarker methods in a wild bird population. Molecular Ecology, 22(15), 3963-3980.
Lin W-Y, Brock IW, Connley D, Cramp H, Tucker R, Slate J, Reed MWR, Balasubramanian SP, Cannon-Albright LA, Camp NJ & Cox A (2013) Associations of ATR and CHEK1 single nucleotide polymorphisms with breast cancer.. PLoS One, 8(7), e68578. View this article in WRRO
Feulner PGD, Gratten J, Kijas JW, Visscher PM, Pemberton JM & Slate J (2013) Introgression and the fate of domesticated genes in a wild mammal population.. Mol Ecol, 22(16), 4210-4221.
Andrew RL, Bernatchez L, Bonin A, Buerkle CA, Carstens BC, Emerson BC, Garant D, Giraud T, Kane NC, Rogers SM , Slate J et al (2013) A road map for molecular ecology. Molecular Ecology, 22(10), 2605-2626.
Dawson DA, Ball AD, Spurgin LG, Martín-Gálvez D, Stewart IRK, Horsburgh GJ, Potter J, Molina-Morales M, Bicknell AWJ, Preston SAJ , Ekblom R et al (2013) High-utility conserved avian microsatellite markers enable parentage and population studies across a wide range of species.. BMC Genomics, 14, 176. View this article in WRRO
Alfadala S, Dawson DA, Horsburgh GJ, Behnke JM, Bajer A, Mohallal EME, Zalat S & Slate J (2013) Large-scale isolation of Eastern spiny mouse Acomys dimidiatus microsatellite loci through GS-FLX 454 titanium sequencing. Conservation Genetics Resources, 5(2), 519-524.
Garroway CJ, Radersma R, Sepil I, Sheldon BC, Santure AW, De Cauwer I & Slate J (2013) Fine-scale genetic structure in a wild bird population: The role of limited dispersal and environmentally based selection as causal factors. Evolution.
Hagen IJ, Billing AM, Rønning B, Pärn H, Jensen H, Pedersen SA & Slate J (2013) The easy road to genome-wide medium density SNP screening in a non-model species: Development and application of a 10 K SNP-chip for the house sparrow (Passer domesticus). Molecular Ecology Resources.
Slate J (2013) From Beavis To Beak Color: A Simulation Study To Examine How Much Qtl Mapping Can Reveal About The Genetic Architecture Of Quantitative Traits. Evolution.
Mossman JA, Slate J, Birkhead TR, Moore HD & Pacey AA (2013) Sperm speed is associated with sex bias of siblings in a human population.. Asian J Androl, 15(1), 152-154.
Brown EA, Pilkington JG, Nussey DH, Watt KA, Hayward AD, Tucker R, Graham AL, Paterson S, Beraldi D, Pemberton JM & Slate J (2013) Detecting genes for variation in parasite burden and immunological traits in a wild population: testing the candidate gene approach.. Mol Ecol, 22(3), 757-773.
Hoffman JI, Tucker R, Bridgett SJ, Clark MS, Forcada J & Slate J (2012) Rates of assay success and genotyping error when single nucleotide polymorphism genotyping in non-model organisms: a case study in the Antarctic fur seal.. Mol Ecol Resour, 12(5), 861-872.
Hemmings NL, Slate J & Birkhead TR (2012) Inbreeding causes early death in a passerine bird.. Nat Commun, 3, 863.
Gratten J, Pilkington JG, Brown EA, Clutton-Brock TH, Pemberton JM & Slate J (2012) Selection and microevolution of coat pattern are cryptic in a wild population of sheep.. Mol Ecol, 21(12), 2977-2990.
Billing AM, Lee AM, Skjelseth S, Borg AA, Hale MC, Slate J, Pärn H, Ringsby TH, Sæther B-E & Jensen H (2012) Evidence of inbreeding depression but not inbreeding avoidance in a natural house sparrow population. Molecular Ecology.
Mossman JA, Slate J, Birkhead TR, Moore HD & Pacey AA (2012) Mitochondrial haplotype does not influence sperm motility in a UK population of men.. Hum Reprod, 27(3), 641-651.
Billing AM, Lee AM, Skjelseth S, Borg AA, Hale MC, Slate J, Pärn H, Ringsby TH, Saether B-E & Jensen H (2012) Evidence of inbreeding depression but not inbreeding avoidance in a natural house sparrow population.. Mol Ecol, 21(6), 1487-1499.
Van Bers NEM, Santure AW, Van Oers K, De Cauwer I, Dibbits BW, Mateman C, Crooijmans RPMA, Sheldon BC, Visser ME, Groenen MAM & Slate J (2012) The design and cross-population application of a genome-wide SNP chip for the great tit Parus major. Molecular Ecology Resources, 12(4), 753-770.
Ekblom R, Slate J, Horsburgh GJ, Birkhead T & Burke T (2012) Comparison between Normalised and Unnormalised 454-Sequencing Libraries for Small-Scale RNA-Seq Studies.. Comp Funct Genomics, 2012, 281693. View this article in WRRO
Santure AW, Gratten J, Mossman JA, Sheldon BC & Slate J (2011) Characterisation of the transcriptome of a wild great tit Parus major population by next generation sequencing.. BMC Genomics, 12, 283. View this article in WRRO
Bretman A, Rodríguez-Muñoz R, Walling C, Slate J & Tregenza T (2011) Fine-scale population structure, inbreeding risk and avoidance in a wild insect population.. Mol Ecol, 20(14), 3045-3055.
CHAPMAN JR, NAKAGAWA S, COLTMAN DW, SLATE J & SHELDON BC (2011) Corrigendum. Molecular Ecology, 20(12), 2655-2655.
Osborne AJ, Brauning R, Schultz JK, Kennedy MA, Slate J & Gemmell NJ (2011) Development of a predicted physical map of microsatellite locus positions for pinnipeds, with wider applicability to the Carnivora.. Mol Ecol Resour, 11(3), 503-513.
Johnston SE, Mcewan JC, Pickering NK, Kijas JW, Beraldi D, Pilkington JG, Pemberton JM & Slate J (2011) Genome-wide association mapping identifies the genetic basis of discrete and quantitative variation in sexual weaponry in a wild sheep population. Molecular Ecology.
Ekblom R, Stapley J, Ball AD, Birkhead T, Burke T & Slate J (2011) Genetic mapping of the major histocompatibility complex in the zebra finch (Taeniopygia guttata). Immunogenetics, 1-8. View this article in WRRO
Wordley C, Slate J & Stapley J (2011) Mining online genomic resources in Anolis carolinensis facilitates rapid and inexpensive development of cross-species microsatellite markers for the Anolis lizard genus. Molecular Ecology Resources, 11(1), 126-133.
Stapley J, Wordley C & Slate J (2011) No evidence of genetic differentiation between anoles with different dewlap color patterns.. J Hered, 102(1), 118-124.
Stapley J, Reger J, Feulner PGD, Smadja C, Galindo J, Ekblom R, Bennison C, Ball AD, Beckerman AP & Slate J (2010) Adaptation genomics: the next generation.. Trends Ecol Evol, 25(12), 705-712.
Ekblom R, French L, Slate J & Burke T (2010) Evolutionary analysis and expression profiling of zebra finch immune genes.. Genome Biol Evol, 2, 781-790. View this article in WRRO
Rodriguez-Munoz R, Bretman A, Slate J, Walling CA & Tregenza T (2010) Natural and Sexual Selection in a Wild Insect Population. SCIENCE, 328(5983), 1269-1272.
Slate J, Santure AW, Feulner PGD, Brown EA, Ball AD, Johnston SE & Gratten J (2010) Genome mapping in intensively studied wild vertebrate populations.. Trends Genet, 26(6), 275-284.
Gratten J, Wilson AJ, McRae AF, Beraldi D, Visscher PM, Pemberton JM & Slate J (2010) No evidence for warming climate theory of coat colour change in Soay sheep: a comment on Maloney et al.. Biol Lett, 6(5), 678-679.
Slate J, Gratten J, Beraldi D, Stapley J, Hale M & Pemberton JM (2010) Gene mapping in the wild with SNPs: guidelines and future directions (vol 136, pg 97, 2009). GENETICA, 138(4), 467-467.
Warren WC, Clayton DF, Ellegren H, Arnold AP, Hillier LW, Künstner A, Searle S, White S, Vilella AJ, Fairley S , Heger A et al (2010) The genome of a songbird.. Nature, 464(7289), 757-762.
Stapley J, Birkhead TR, Burke T & Slate J (2010) Pronounced inter- and intrachromosomal variation in linkage disequilibrium across the zebra finch genome.. Genome Res, 20(4), 496-502.
Santure AW, Stapley J, Ball AD, Birkhead TR, Burke T & Slate J (2010) On the use of large marker panels to estimate inbreeding and relatedness: empirical and simulation studies of a pedigreed zebra finch population typed at 771 SNPs.. Mol Ecol, 19(7), 1439-1451.
Slate J (2010) Gems from the Heredity archive Scrapie genetics before the discovery of prions. HEREDITY, 104(2), 122-123.
Johnston SE, Beraldi D, McRae AF, Pemberton JM & Slate J (2010) Horn type and horn length genes map to the same chromosomal region in Soay sheep.. Heredity (Edinb), 104(2), 196-205.
Slate J (2010) Terry Burke - recipient of the 2009Molecular EcologyPrize. Molecular Ecology, 19(1), 23-24.
Ball AD, Stapley J, Dawson DA, Birkhead TR, Burke T & Slate J (2010) A comparison of SNPs and microsatellites as linkage mapping markers: lessons from the zebra finch (Taeniopygia guttata).. BMC Genomics, 11, 218. View this article in WRRO
Ekblom R, Balakrishnan CN, Burke T & Slate J (2010) Digital gene expression analysis of the zebra finch genome.. BMC Genomics, 11, 219. View this article in WRRO
Mossman JA, Slate J & Birkhead TR (2010) Mitochondrial haplotype does not affect sperm velocity in the zebra finch Taeniopygia guttata.. J Evol Biol, 23(2), 422-432.
Gratten J, Pilkington JG, Brown EA, Beraldi D, Pemberton JM & Slate J (2010) The genetic basis of recessive self-colour pattern in a wild sheep population.. Heredity (Edinb), 104(2), 206-214.
Chapman JR, Nakagawa S, Coltman DW, Slate J & Sheldon BC (2009) A quantitative review of heterozygosity-fitness correlations in animal populations. MOL ECOL, 18(13), 2746-2765.
Snook RR, Brüstle L & Slate J (2009) A test and review of the role of effective population size on experimental sexual selection patterns.. Evolution, 63(7), 1923-1933.
Mossman J, Slate J, Humphries S & Birkhead T (2009) Sperm morphology and velocity are genetically codetermined in the zebra finch.. Evolution, 63(10), 2730-2737.
Swarbrick PJ, Scholes JD, Press MC & Slate J (2009) A major QTL for resistance of rice to the parasitic plant Striga hermonthica is not dependent on genetic background.. Pest Manag Sci, 65(5), 528-532.
Slate J (2009) Bias in studies of heterozygosity and mate choice.. Mol Ecol, 18(9), 1815-1817.
Slate J, Gratten J, Beraldi D, Stapley J, Hale M & Pemberton JM (2009) Gene mapping in the wild with SNPs: guidelines and future directions.. Genetica, 136(1), 97-107.
Kruuk LEB, Slate J & Wilson AJ (2008) New Answers for Old Questions: The Evolutionary Quantitative Genetics of Wild Animal Populations. ANNU REV ECOL EVOL S, 39, 525-548.
Kenta T, Gratten J, Haigh NS, Hinten GN, Slate J, Butlin RK & Burke T (2008) Multiplex SNP-SCALE: a cost-effective medium-throughput single nucleotide polymorphism genotyping method. MOL ECOL RESOUR, 8(6), 1230-1238.
Swarbrick PJ, Huang K, Liu G, Slate J, Press MC & Scholes JD (2008) Global patterns of gene expression in rice cultivars undergoing a susceptible or resistant interaction with the parasitic plant Striga hermonthica.. New Phytol, 179(2), 515-529.
Bacigalupe LD, Crudgington HS, Slate J, Moore AJ & Snook RR (2008) Sexual selection and interacting phenotypes in experimental evolution: a study of Drosophila pseudoobscura mating behavior.. Evolution, 62(7), 1804-1812.
Lane JE, Boutin S, Gunn MR, Slate J & Coltman DW (2008) Female multiple mating and paternity in free-ranging North American red squirrels. ANIM BEHAV, 75, 1927-1937.
Stapley J, Birkhead TR, Burke T & Slate J (2008) A linkage map of the zebra finch Taeniopygia guttata provides new insights into avian genome evolution.. Genetics, 179(1), 651-667.
Slate J (2008) Robustness of linkage maps in natural populations: a simulation study.. Proc Biol Sci, 275(1635), 695-702.
Gratten J, Wilson AJ, McRae AF, Beraldi D, Visscher PM, Pemberton JM & Slate J (2008) A localized negative genetic correlation constrains microevolution of coat color in wild sheep.. Science, 319(5861), 318-320.
Hale MC, Jensen H, Birkhead TR, Burke T & Slate J (2008) A comparison of synteny and gene order on the homologue of chicken chromosome 7 between two passerine species and between passerines and chicken.. Cytogenet Genome Res, 121(2), 120-129.
Lane JE, Boutin S, Gunn MR, Slate J & Coltman DW (2007) Genetic relatedness of mates does not predict patterns of parentage in North American red squirrels. ANIM BEHAV, 74, 611-619.
Dawson DA, Akesson M, Burke T, Pemberton JM, Slate J & Hansson B (2007) Gene order and recombination rate in homologous chromosome regions of the chicken and a passerine bird. MOL BIOL EVOL, 24(7), 1537-1552.
Slate J & Pemberton JM (2007) Admixture and patterns of linkage disequilibrium in a free-living vertebrate population.. J Evol Biol, 20(4), 1415-1427.
Beraldi D, Mcrae AF, Gratten J, Slate J, Visscher PM & Pemberton JM (2007) Mapping quantitative trait loci underlying fitness-related traits in a free-living sheep population. EVOLUTION, 61(6), 1403-1416.
Hinten GN, Hale MC, Gratten J, Mossman JA, Lowder BV, Mann MK & Slate J (2007) SNP-SCALE: SNP scoring by colour and length exclusion. MOL ECOL NOTES, 7(3), 377-388.
Gunn MR, Hartnup K, Boutin S, Slate J & Coltman DW (2007) A test of the efficacy of whole-genome amplification on DNA obtained from low-yield samples: Technical article. Molecular Ecology Notes, 7(3), 393-399.
Beraldi D, McRae AF, Gratten J, Pilkington JG, Slate J, Visscher PM & Pemberton JM (2007) Quantitative trait loci (QTL) mapping of resistance to strongyles and coccidia in the free-living Soay sheep (Ovis aries). INT J PARASITOL, 37(1), 121-129.
Slate J, Hale MC & Birkhead TR (2007) Simple sequence repeats in zebra finch (Taeniopygia guttata) expressed sequence tags: a new resource for evolutionary genetic studies of passerines.. BMC Genomics, 8, 52. View this article in WRRO
Gratten J, Beraldi D, Lowder BV, McRae AF, Visscher PM, Pemberton JM & Slate J (2007) Compelling evidence that a single nucleotide substitution in TYRP1 is responsible for coat-colour polymorphism in a free-living population of Soay sheep.. Proc Biol Sci, 274(1610), 619-626.
Gemmell NJ & Slate J (2006) Heterozygote Advantage for Fecundity. PLOS ONE, 1(2). View this article in WRRO
Mossman JA, Birkhead TR & Slate J (2006) The whole mitochondrial genome sequence of the zebra finch (Taeniopygia guttata). MOL ECOL NOTES, 6(4), 1222-1227.
Slate J & Pemberton J (2006) Does reduced heterozygosity depress sperm quality in wild rabbits (Oryctolagus cuniculus)?. CURR BIOL, 16(18), R790-R791.
Beraldi D, Mcrae AF, Gratten J, Slate J, Visscher PM & Pemberton JM (2006) Development of a linkage map and mapping of phenotypic polymorphisms in a free-living population of Soay sheep (Ovis aries). GENETICS, 173(3), 1521-1537.
Dawson DA, Burke T, Hansson B, Pandhal J, Hale MC, Hinten GN & Slate J (2006) A predicted microsatellite map of the passerine genome based on chicken-passerine sequence similarity.. Mol Ecol, 15(5), 1299-1320.
Gurney AL, Slate J, Press MC & Scholes JD (2006) A novel form of resistance in rice to the angiosperm parasite Striga hermonthica.. New Phytol, 169(1), 199-208.
Slate J (2005) Molecular evolution of the sheep prion protein gene.. Proc Biol Sci, 272(1579), 2371-2377. View this article in WRRO
Hansson B, Akesson M, Slate J & Pemberton JM (2005) Linkage mapping reveals sex-dimorphic map distances in a passerine bird. P ROY SOC B-BIOL SCI, 272(1578), 2289-2298. View this article in WRRO
Gunn MR, Dawson DA, Leviston A, Hartnup K, Davis CS, Strobeck C, Slate J & Coltman DW (2005) Isolation of 18 polymorphic microsatellite loci from the North American red squirrel, Tamiasciurus hudsonicus (Sciuridae, Rodentia), and their cross-utility in other species. MOL ECOL NOTES, 5(3), 650-653.
Slate J (2005) Quantitative trait locus mapping in natural populations: progress, caveats and future directions.. Mol Ecol, 14(2), 363-379.
Slate J & Gemmell NJ (2004) Eve 'n' Steve: recombination of human mitochondrial DNA. TRENDS ECOL EVOL, 19(11), 561-563.
Slate J, David P, Dodds KG, Veenvliet BA, Glass BC, Broad TE & McEwan JC (2004) Understanding the relationship between the inbreeding coefficient and multilocus heterozygosity: theoretical expectations and empirical data.. Heredity (Edinb), 93(3), 255-265.
Coltman DW & Slate J (2003) Microsatellite measures of inbreeding: a meta-analysis.. Evolution, 57(5), 971-983.
Slate J & Phua SH (2003) Patterns of linkage disequilibrium in mitochondrial DNA of 16 ruminant populations.. Mol Ecol, 12(3), 597-608.
Coltman DW & Slate J (2003) MICROSATELLITE MEASURES OF INBREEDING: A META-ANALYSIS. Evolution, 57(5), 971-971.
Kruuk LEB, Slate J, Pemberton JM & Clutton-Brock TH (2003) Fluctuating asymmetry in a secondary sexual trait: no associations with individual fitness, environmental stress or inbreeding, and no heritability. J EVOLUTION BIOL, 16(1), 101-113.
Slate J, Visscher PM, MacGregor S, Stevens D, Tate ML & Pemberton JM (2002) A genome scan for quantitative trait loci in a wild population of red deer (Cervus elaphus).. Genetics, 162(4), 1863-1873.
Marshall TC, Coltman DW, Pemberton JM, Slate J, Spalton JA, Guinness FE, Smith JA, Pilkington JG & Clutton–Brock TH (2002) Estimating the prevalence of inbreeding from incomplete pedigrees. Proceedings of the Royal Society of London. Series B: Biological Sciences, 269(1500), 1533-1539.
Kruuk LEB, Slate J, Pemberton JM, Brotherstone S, Guinness F & Clutton-Brock T (2002) ANTLER SIZE IN RED DEER: HERITABILITY AND SELECTION BUT NO EVOLUTION. Evolution, 56(8), 1683-1695.
Slate J, Van Stijn TC, Anderson RM, Mary McEwan K, Maqbool NJ, Mathias HC, Bixley MJ, Stevens DR, Molenaar AJ, Beever JE , Galloway SM et al (2002) A deer (subfamily cervinae) genetic linkage map and the evolution of ruminant genomes. Genetics, 160(4), 1587-1597.
McRae AF, McEwan JC, Dodds KG, Wilson T, Crawford AM & Slate J (2002) Linkage disequilibrium in domestic sheep. Genetics, 160(3), 1113-1122.
Slate J & Pemberton JM (2002) Comparing molecular measures for detecting inbreeding depression. Journal of Evolutionary Biology, 15(1), 20-31.
Kruuk LEB, Slate J, Pemberton JM, Brotherstone S, Guinness F & Clutton-Brock T (2002) ANTLER SIZE IN RED DEER: HERITABILITY AND SELECTION BUT NO EVOLUTION. Evolution, 56(8), 1683-1683.
Slate J, Kruuk LEB, Marshall TC, Pemberton JM & Clutton-Brock TH (2000) Inbreeding depression influences lifetime breeding success in a wild population of red deer ( Cervus elaphus ). Proceedings of the Royal Society of London. Series B: Biological Sciences, 267(1453), 1657-1662.
Slate J, Marshall T & Pemberton J (2000) A retrospective assessment of the accuracy of the paternity inference program cervus. Molecular Ecology, 9(6), 801-808.
Kruuk LEB, Clutton-Brock TH, Slate J, Pemberton JM, Brotherstone S & Guinness FE (2000) Heritability of fitness in a wild mammal population. Proceedings of the National Academy of Sciences, 97(2), 698-703.
Coulson T, Albon S, Slate J & Pemberton J (1999) MICROSATELLITE LOCI REVEAL SEX-DEPENDENT RESPONSES TO INBREEDING AND OUTBREEDING IN RED DEER CALVES. Evolution, 53(6), 1951-1960.
Coulson T, Albon S, Slate J & Pemberton J (1999) Microsatellite Loci Reveal Sex-Dependent Responses to Inbreeding and Outbreeding in Red Deer Calves. Evolution, 53(6), 1951-1951.
Slate J, Pemberton JM & Visscher PM (1999) Power to detect QTL in a free-living polygynous population. Heredity, 83(3), 327-336.
SLATE JON (1999) Molecular Genetic Analysis of Populations. 2nd Edition. Edited by A. R. HOELZEL. Oxford University Press. ISBN 0 19 963634 8 (hard); 0 19 863635 5 (paper). 445 pages. Price £29.95.. Genetical Research, 73(1), 85-89.
Slate J, Coltman DW, Goodman SJ, MacLean I, Pemberton JM & Williams JL (1998) Bovine microsatellite loci are highly conserved in red deer (Cervus elaphus), sika deer (Cervus nippon) and Soay sheep (Ovis aries). Animal Genetics, 29(4), 307-315.
MARSHALL TC, SLATE J, KRUUK LEB & PEMBERTON JM (1998) Statistical confidence for likelihood‐based paternity inference in natural populations. Molecular Ecology, 7(5), 639-655.
COULSON , ALBON , PEMBERTON , SLATE , GUINNESS & CLUTTON‐BROCK (1998) Genotype by environment interactions in winter survival in red deer. Journal of Animal Ecology, 67(3), 434-445.
Coulson TN, Pemberton JM, Albon SD, Beaumont M, Marshall TC, J S, Guinness FE & Clutton-Brock TH (1998) Microsatellites reveal heterosis in red deer. Proceedings of the Royal Society of London. Series B: Biological Sciences, 265(1395), 489-495.
(1996) The maintenance of genetic polymorphism in small island populations: large mammals in the Hebrides. Philosophical Transactions of the Royal Society of London. Series B: Biological Sciences, 351(1341), 745-752.
PEMBERTON JM, SLATE J, BANCROFT DR & BARRETT JA (1995) Nonamplifying alleles at microsatellite loci: a caution for parentage and population studies. Molecular Ecology, 4(2), 249-252.
Pérez-González J, Costa V, Santos P, Slate J, Carranza J, Fernández-Llario P, Zsolnai A, Monteiro NM, Anton I, Buzgó J , Varga G et al () Males and Females Contribute Unequally to Offspring Genetic Diversity in the Polygynandrous Mating System of Wild Boar. PLoS ONE, 9(12), e115394-e115394. View this article in WRRO
Fariello M-I, Servin B, Tosser-Klopp G, Rupp R, Moreno C, Cristobal MS & Boitard S () Selection Signatures in Worldwide Sheep Populations. PLoS ONE, 9(8), e103813-e103813. View this article in WRRO
Heaton MP, Kalbfleisch TS, Petrik DT, Simpson B, Kijas JW, Clawson ML, Chitko-McKown CG, Harhay GP & Leymaster KA () Genetic Testing for TMEM154 Mutations Associated with Lentivirus Susceptibility in Sheep. PLoS ONE, 8(2), e55490-e55490. View this article in WRRO
Kijas JW, Lenstra JA, Hayes B, Boitard S, Porto Neto LR, San Cristobal M, Servin B, McCulloch R, Whan V, Gietzen K , Paiva S et al () Genome-Wide Analysis of the World's Sheep Breeds Reveals High Levels of Historic Mixture and Strong Recent Selection. PLoS Biology, 10(2), e1001258-e1001258. View this article in WRRO

Chapters

Jensen H, Szulkin M & Slate J (2014) Molecular quantitative genetics, QUANTITATIVE GENETICS IN THE WILD (pp. 209-227).
Nichols KM, Neale DB, Gratten J, Wilson AJ, McRae AF, Beraldi D, Visscher PM, Pemberton JM & Slate J (2010) Association genetics, population genomics, and conservation: Revealing the genes underlying adaptation in natural populations of plants and animals, MOLECULAR APPROACHES IN NATURAL RESOURCE CONSERVATION AND MANAGEMENT (pp. 123-168).
Scholes JD, Swarbrick PJ, Slate J & Press MC (2007) THE MOLECULAR GENETIC BASIS OF HOST RESISTANCE TO STRIGA SPECIES: A WAY FORWARD, Integrating New Technologies for Striga Control (pp. 173-184). WORLD SCIENTIFIC

Preprints

Urban L, Santure AW, Uddstrom L, Digby A, Vercoe D, Eason D, Crane J, Wylie MJ, Davis T, LeLec MF , Guhlin J et al (2023) The ghost of selection past: evolution and conservation relevance of the kākāpō color polymorphism, Cold Spring Harbor Laboratory.
Day G, Fox G, Hipperson H, Maher K, Tucker R, Horsburgh G, Waters D, Durrant KL, Arnold K, Burke T & Slate J (2023) Revealing the Demographic History of the European nightjar (Caprimulgus europaeus)., Authorea, Inc..
Carvalho CD, Slate J, Villoutreix R, Soria-Carrasco V, Riesch R, Feder J, Gompert Z & Nosil P (2023) Replicated DNA methylation differences between stick insect ecotypes, Authorea, Inc..
Hunter DC, Ashraf B, Bérénos C, Ellis PA, Johnston SE, Wilson AJ, Pilkington JG, Pemberton JM & Slate J () Using genomic prediction to detect microevolutionary change of a quantitative trait, Cold Spring Harbor Laboratory.
Ashraf B, Hunter DC, Bérénos C, Ellis PA, Johnston SE, Pilkington JG, Pemberton JM & Slate J () Genomic prediction in the wild: A case study in Soay sheep.
Spurgin LG, Bosse M, Adriaensen F, Albayrak T, Barboutis C, Belda E, Bushuev A, Cecere JG, Charmantier A, Cichon M , Dingemanse NJ et al () The great tit HapMap project: a continental-scale analysis of genomic variation in a songbird, Cold Spring Harbor Laboratory.
Johnston SE, Bérénos C, Slate J & Pemberton JM () A genomic region containing RNF212 and CPLX1 is associated with sexually-dimorphic recombination rate variation in Soay sheep (Ovis aries), Cold Spring Harbor Laboratory.

Research group

Jo Stonehouse (NERC funded PhD student)
Jake Pepper (NERC funded PhD student)
Mark Sutherland (NERC funded PhD student)
De Chen (Chinese Scholarship Council visiting researcher)
Darren Hunter (NERC funded postdoc)

Teaching activities: Most of my teaching covers topics related to evolution and genetics. I coordinate and teach APS351 (Human Evolutionary Genetics) and APS31005 (Biological Laboratory Course: Human Genomics). I also teach on APS11006 (Principles of Evolution) and BIS223 (Evolutionary Biology). At Masters level, I am the coordinator of APS61010 (Research and Communication Skills). I typically take tutorials at 1st and 2nd year, and supervise Level 3 and L4 project and dissertation students. I am unlikely to be able to offer projects that involve extensive molecular laboratory work.

Professional activities and memberships

Editor-in-Chief: Evolution Letters (2016-)
External Examiner: Biological Sciences degrees, University of Oxford (2018-20)
Leverhulme/Royal Society Research Fellowship (2018-19)
Scientific Medal: Zoological Society of London (2011)
Associate Editor: Molecular Ecology (2005-16); Journal of Evolutionary Biology (2007-10)
Research Council Panel Memberships: NERC Peer Review College (2004-08); BBSRC Pool of Experts (2011-16); NERC fellowships (2008); European Science Foundation Community of Experts 2018-21)
Committees: Genetics Society (2011-15); Zoological Society of London Prizes (2013-17)
Society Membership: The Genetics Society; Society for Study of Evolution (SSE); European Society of Evolutionary Biology (ESEB)