527
Corrales J, Thornton C, White M, Willett KL (2014) Multigenerational effects of benzo[a]pyrene
exposure on survival and developmental deformities in zebrafish larvae. Aquat Toxicol 148:16–
26. https://doi.org/10.1016/j.aquatox.2013.12.028
Das PM, Ramachandran K, vanWert J, Singal R (2004) Chromatin immunoprecipitation assay.
BioTechniques 37(6):961–969. https://doi.org/10.2144/04376rv01
DeAngelis JT, Farrington WJ, Tollefsbol TO (2008) An overview of epigenetic assays. Mol
Biotechnol 38(2):179–183. https://doi.org/10.1007/s12033-007-9010-y
Denison MS, Nagy SR (2003) Activation of the aryl hydrocarbon receptor by structurally diverse
exogenous and endogenous chemicals. Annu Rev Pharmacol Toxicol 43(1):309–334. https://
doi.org/10.1146/annurev.pharmtox.43.100901.135828
Di Giulio RT, Clark BW (2015) The Elizabeth River story: a case study in evolutionary toxicology.
J Toxicol Environ Heal B 18(6):259–298. https://doi.org/10.1080/15320383.2015.1074841
Diamante G, Xu EG, Chen S, Mager E, Grosell M, Schlenk D (2017) Differential expression
of microRNAs in embryos and larvae of Mahi-Mahi (Coryphaena hippurus) exposed to
Deepwater Horizon oil. Environ Sci Technol Lett 4(12):523–529. https://doi.org/10.1021/acs.
estlett.7b00484
Edmunds RC, Gill J, Baldwin DH, Linbo TL, French BL, Brown TL, Esbaugh AJ, Mager EM,
Stieglitz J, Hoenig R (2015) Corresponding morphological and molecular indicators of crude
oil toxicity to the developing hearts of mahi mahi. Sci Rep 5:17326
Eeva T, Belskii E, Kuranov B (2006) Environmental pollution affects genetic diversity in wild bird
populations. Mutat Res 608(1):8–15. https://doi.org/10.1016/j.mrgentox.2006.04.021
Frank SA (2010) Somatic evolutionary genomics: mutations during development cause highly
variable genetic mosaicism with risk of cancer and neurodegeneration. Proc Natl Acad Sci
107(suppl 1):1725–1730
Frankham R, Bradshaw CJA, Brook BW (2014) Genetics in conservation management: revised
recommendations for the 50/500 rules, Red List criteria and population viability analyses. Biol
Conserv 170:56–63. https://doi.org/10.1016/j.biocon.2013.12.036
Frederick LA, Van Veld PA, Rice CD (2007) Bioindicators of immune function in creosote-adapted
estuarine killifish, Fundulus heteroclitus. J Toxic Environ Health A 70(17):1433–1442. https://
doi.org/10.1080/15287390701382910
Gao D, Wang C, Xi Z, Zhou Y, Wang Y, Zuo Z (2017) Early-life benzo[a]pyrene exposure causes
neurodegenerative syndromes in adult Zebrafish (Danio rerio) and the mechanism involved.
Toxicol Sci 157(1):74–84. https://doi.org/10.1093/toxsci/kfx028
Garcia TI, Shen Y, Crawford D, Oleksiak MF, Whitehead A, Walter RB (2012) RNA-Seq reveals
complex genetic response to Deepwater Horizon oil release in Fundulus grandis. BMC
Genomics 13(1):474
Hackett JA, Sengupta R, Zylicz JJ, Murakami K, Lee C, Down TA, Surani MA (2013) Germline
DNA demethylation dynamics and imprint erasure through 5-hydroxymethylcytosine. Science
339(6118):448
Hahn ME, Karchner SI, Evans BR, Franks DG, Merson RR, Lapseritis JM (2006) Unexpected
diversity of aryl hydrocarbon receptors in non-mammalian vertebrates: insights from comparative genomics. J Exp Zool A Comp Exp Biol 305A(9):693–706. https://doi.org/10.1002/
jez.a.323
Handley-Goldstone HM, Grow MW, Stegeman JJ (2005) Cardiovascular gene expression profiles
of dioxin exposure in Zebrafish embryos. Toxicol Sci 85(1):683–693. https://doi.org/10.1093/
toxsci/kfi116
Haensly WE, Neff JM, Sharp JR, Morris AC, Bedgood MF, Boem PD (1982) Histopathology
of Pleuronectes platessa L. from Aber Wrac'h and Aber Benoit, Brittany, France: longterm effects of the Amoco Cadiz crude oil spill. J Fish Dis 5(5):365–391. https://doi.
org/10.1111/j.1365-2761.1982.tb00494.x
Hanson MA, Skinner MK (2016) Developmental origins of epigenetic transgenerational inheritance. Environmental Epigenetics 2(1):dvw002–dvw002. https://doi.org/10.1093/eep/dvw002
30 Genetics and Oil: Transcriptomics, Epigenetics, and Population Genomics as Tools…
Corrales J, Thornton C, White M, Willett KL (2014) Multigenerational effects of benzo[a]pyrene
exposure on survival and developmental deformities in zebrafish larvae. Aquat Toxicol 148:16–
26. https://doi.org/10.1016/j.aquatox.2013.12.028
Das PM, Ramachandran K, vanWert J, Singal R (2004) Chromatin immunoprecipitation assay.
BioTechniques 37(6):961–969. https://doi.org/10.2144/04376rv01
DeAngelis JT, Farrington WJ, Tollefsbol TO (2008) An overview of epigenetic assays. Mol
Biotechnol 38(2):179–183. https://doi.org/10.1007/s12033-007-9010-y
Denison MS, Nagy SR (2003) Activation of the aryl hydrocarbon receptor by structurally diverse
exogenous and endogenous chemicals. Annu Rev Pharmacol Toxicol 43(1):309–334. https://
doi.org/10.1146/annurev.pharmtox.43.100901.135828
Di Giulio RT, Clark BW (2015) The Elizabeth River story: a case study in evolutionary toxicology.
J Toxicol Environ Heal B 18(6):259–298. https://doi.org/10.1080/15320383.2015.1074841
Diamante G, Xu EG, Chen S, Mager E, Grosell M, Schlenk D (2017) Differential expression
of microRNAs in embryos and larvae of Mahi-Mahi (Coryphaena hippurus) exposed to
Deepwater Horizon oil. Environ Sci Technol Lett 4(12):523–529. https://doi.org/10.1021/acs.
estlett.7b00484
Edmunds RC, Gill J, Baldwin DH, Linbo TL, French BL, Brown TL, Esbaugh AJ, Mager EM,
Stieglitz J, Hoenig R (2015) Corresponding morphological and molecular indicators of crude
oil toxicity to the developing hearts of mahi mahi. Sci Rep 5:17326
Eeva T, Belskii E, Kuranov B (2006) Environmental pollution affects genetic diversity in wild bird
populations. Mutat Res 608(1):8–15. https://doi.org/10.1016/j.mrgentox.2006.04.021
Frank SA (2010) Somatic evolutionary genomics: mutations during development cause highly
variable genetic mosaicism with risk of cancer and neurodegeneration. Proc Natl Acad Sci
107(suppl 1):1725–1730
Frankham R, Bradshaw CJA, Brook BW (2014) Genetics in conservation management: revised
recommendations for the 50/500 rules, Red List criteria and population viability analyses. Biol
Conserv 170:56–63. https://doi.org/10.1016/j.biocon.2013.12.036
Frederick LA, Van Veld PA, Rice CD (2007) Bioindicators of immune function in creosote-adapted
estuarine killifish, Fundulus heteroclitus. J Toxic Environ Health A 70(17):1433–1442. https://
doi.org/10.1080/15287390701382910
Gao D, Wang C, Xi Z, Zhou Y, Wang Y, Zuo Z (2017) Early-life benzo[a]pyrene exposure causes
neurodegenerative syndromes in adult Zebrafish (Danio rerio) and the mechanism involved.
Toxicol Sci 157(1):74–84. https://doi.org/10.1093/toxsci/kfx028
Garcia TI, Shen Y, Crawford D, Oleksiak MF, Whitehead A, Walter RB (2012) RNA-Seq reveals
complex genetic response to Deepwater Horizon oil release in Fundulus grandis. BMC
Genomics 13(1):474
Hackett JA, Sengupta R, Zylicz JJ, Murakami K, Lee C, Down TA, Surani MA (2013) Germline
DNA demethylation dynamics and imprint erasure through 5-hydroxymethylcytosine. Science
339(6118):448
Hahn ME, Karchner SI, Evans BR, Franks DG, Merson RR, Lapseritis JM (2006) Unexpected
diversity of aryl hydrocarbon receptors in non-mammalian vertebrates: insights from comparative genomics. J Exp Zool A Comp Exp Biol 305A(9):693–706. https://doi.org/10.1002/
jez.a.323
Handley-Goldstone HM, Grow MW, Stegeman JJ (2005) Cardiovascular gene expression profiles
of dioxin exposure in Zebrafish embryos. Toxicol Sci 85(1):683–693. https://doi.org/10.1093/
toxsci/kfi116
Haensly WE, Neff JM, Sharp JR, Morris AC, Bedgood MF, Boem PD (1982) Histopathology
of Pleuronectes platessa L. from Aber Wrac'h and Aber Benoit, Brittany, France: longterm effects of the Amoco Cadiz crude oil spill. J Fish Dis 5(5):365–391. https://doi.
org/10.1111/j.1365-2761.1982.tb00494.x
Hanson MA, Skinner MK (2016) Developmental origins of epigenetic transgenerational inheritance. Environmental Epigenetics 2(1):dvw002–dvw002. https://doi.org/10.1093/eep/dvw002
30 Genetics and Oil: Transcriptomics, Epigenetics, and Population Genomics as Tools…