TY - JOUR
AU - Lindsey K. Manshack, Caroline M. Conard, Sara J. Bryan, Sharon L. Deem, Dawn K. Holliday, Nathan J. Bivens, Scott A. Givan, Cheryl S. Rosenfeld
AB - REFERENCES 1. ↵ Alhamdoosh M , Ng M , Wilson NJ , Sheridan JM , Huynh H , Wilson MJ , Ritchie ME . Combining multiple tools outperforms individual methods in gene set enrichment analyses . Bioinformatics 11 : 042580 , 2016 . doi: 10.1093/bioinformatics/btw623 . pmid: 27694195 OpenUrl Abstract / FREE Full Text 2. ↵ Bereketoglu C , Arga KY , Eraslan S , Mertoglu B . Analysis of transcriptional profiles of Saccharomyces cerevisiae exposed to bisphenol A . Curr Genet (Epub ahead of print). doi: 10.1007/s00294-016-0633-z . pmid: 27460658 OpenUrl CrossRef PubMed 3. ↵ Bergeron JM , Willingham E , Osborn CT III . , Rhen T , Crews D . Developmental synergism of steroidal estrogens in sex determination . Environ Health Perspect 107 : 93 – 97 , 1999 . doi: 10.1289/ehp.9910793 . pmid: 9924002 OpenUrl CrossRef PubMed Web of Science 4. ↵ Bhandari RK , Deem SL , Holliday DK , Jandegian CM , Kassotis CD , Nagel SC , Tillitt DE , Vom Saal FS , Rosenfeld CS . Effects of the environmental estrogenic contaminants bisphenol A and 17α-ethinyl estradiol on sexual development and adult behaviors in aquatic wildlife species . Gen Comp Endocrinol 214 : 195 – 219 , 2015 . doi: 10.1016/j.ygcen.2014.09.014 . pmid: 25277515 OpenUrl CrossRef PubMed 5. ↵ Blau A , Powers AS . Discrimination learning in turtles after lesions of the dorsal cortex or basal forebrain . Psychobiology (Austin, TX) 17 : 445 – 449 , 1989 . OpenUrl 6. ↵ Branco AT , Lemos B . High intake of dietary sugar enhances bisphenol A (BPA) disruption and reveals ribosome-mediated pathways of toxicity . Genetics 197 : 147 – 157 , 2014 . doi: 10.1534/genetics.114.163170 . pmid: 24614930 OpenUrl Abstract / FREE Full Text 7. ↵ Brinton RD . Estrogen regulation of glucose metabolism and mitochondrial function: therapeutic implications for prevention of Alzheimer’s disease . Adv Drug Deliv Rev 60 : 1504 – 1511 , 2008 . doi: 10.1016/j.addr.2008.06.003 . pmid: 18647624 OpenUrl CrossRef PubMed Web of Science 8. ↵ Bull JJ , Gutzke WH , Crews D . Sex reversal by estradiol in three reptilian orders . Gen Comp Endocrinol 70 : 425 – 428 , 1988 . doi: 10.1016/0016-6480(88)90117-7 . pmid: 3417117 OpenUrl CrossRef PubMed Web of Science 9. ↵ Caccamo A , Branca C , Talboom JS , Shaw DM , Turner D , Ma L , Messina A , Huang Z , Wu J , Oddo S . Reducing ribosomal protein S6 kinase 1 expression improves spatial memory and synaptic plasticity in a mouse model of Alzheimer’s disease . J Neurosci 35 : 14042 – 14056 , 2015 . doi: 10.1523/JNEUROSCI.2781-15.2015 . pmid: 26468204 OpenUrl Abstract / FREE Full Text 10. ↵ Cano-Nicolau J , Vaillant C , Pellegrini E , Charlier TD , Kah O , Coumailleau P . Estrogenic effects of several BPA analogs in the developing zebrafish brain . Front Neurosci 10 : 112 , 2016 . doi: 10.3389/fnins.2016.00112 . pmid: 27047331 OpenUrl CrossRef PubMed 11. ↵ Chan WK , Chan KM . Disruption of the hypothalamic-pituitary-thyroid axis in zebrafish embryo-larvae following waterborne exposure to BDE-47, TBBPA and BPA . Aquat Toxicol 108 : 106 – 111 , 2012 . doi: 10.1016/j.aquatox.2011.10.013 . pmid: 22100034 OpenUrl CrossRef PubMed 12. ↵ Chen YA , Tripathi LP , Mizuguchi K . An integrative data analysis platform for gene set analysis and knowledge discovery in a data warehouse framework . Database 2016 : baw009 , 2016 . doi: 10.1093/database/baw009 . pmid: 26989145 OpenUrl Abstract / FREE Full Text 13. ↵ Clairardin SG , Paitz RT , Bowden RM . In ovo inhibition of steroid metabolism by bisphenol-A as a potential mechanism of endocrine disruption . Proc Biol Sci 280 : 20131773 , 2013 . doi: 10.1098/rspb.2013.1773 . pmid: 24004940 OpenUrl Abstract / FREE Full Text 14. ↵ Cotter KA , Yershov A , Novillo A , Callard GV . Multiple structurally distinct ERα mRNA variants in zebrafish are differentially expressed by tissue type, stage of development and estrogen exposure . Gen Comp Endocrinol 194 : 217 – 229 , 2013 . doi: 10.1016/j.ygcen.2013.09.014 . pmid: 24090614 OpenUrl CrossRef PubMed 15. ↵ Crews D , Bull JJ , Wibbels T . Estrogen and sex reversal in turtles: a dose-dependent phenomenon . Gen Comp Endocrinol 81 : 357 – 364 , 1991 . doi: 10.1016/0016-6480(91)90162-Y . pmid: 2055436 OpenUrl CrossRef PubMed Web of Science 16. Crews D , Cantú AR , Bergeron JM , Rhen T . The relative effectiveness of androstenedione, testosterone, and estrone, precursors to estradiol, in sex reversal in the red-eared slider (Trachemys scripta), a turtle with temperature-dependent sex determination . Gen Comp Endocrinol 100 : 119 – 127 , 1995 . doi: 10.1006/gcen.1995.1140 . pmid: 8575652 OpenUrl CrossRef PubMed 17. ↵ Crews D , Cantú AR , Rhen T , Vohra R . The relative effectiveness of estrone, estradiol-17 beta, and estriol in sex reversal in the red-eared slider (Trachemys scripta), a turtle with temperature-dependent sex determination . Gen Comp Endocrinol 102 : 317 – 326 , 1996 . doi: 10.1006/gcen.1996.0075 . pmid: 8804562 OpenUrl CrossRef PubMed 18. ↵ Dreier DA , Loughery JR , Denslow ND , Martyniuk CJ . The influence of breeding strategy, reproductive stage, and tissue type on transcript variability in fish . Comp Biochem Physiol Part D Genomics Proteomics 19 : 151 – 158 , 2016 . doi: 10.1016/j.cbd.2016.05.005 . pmid: 27325421 OpenUrl CrossRef PubMed 19. ↵ Freedberg S , Bowden RM , Ewert MA , Sengelaub DR , Nelson CE . Long-term sex reversal by oestradiol in amniotes with heteromorphic sex chromosomes . Biol Lett 2 : 378 – 381 , 2006 . doi: 10.1098/rsbl.2006.0454. . pmid: 17148408 OpenUrl Abstract / FREE Full Text 20. ↵ ftp://ftp.ensembl.org/pub/pre/fasta/dna/chrysemys_picta_bellii/ . 21. ↵ ftp://ftp.ensembl.org/pub/pre/gtf/chrysemys_picta_bellii/ . 22. ↵ García-Alcalde F , García-López F , Dopazo J , Conesa A . Paintomics: a web based tool for the joint visualization of transcriptomics and metabolomics data . Bioinformatics 27 : 137 – 139 , 2011 . doi: 10.1093/bioinformatics/btq594 . pmid: 21098431 OpenUrl CrossRef PubMed 23. ↵ Ge LC , Chen ZJ , Liu H , Zhang KS , Su Q , Ma XY , Huang HB , Zhao ZD , Wang YY , Giesy JP , Du J , Wang HS . Signaling related with biphasic effects of bisphenol A (BPA) on Sertoli cell proliferation: a comparative proteomic analysis . Biochim Biophys Acta 1840 : 2663 – 2673 , 2014 . doi: 10.1016/j.bbagen.2014.05.018 . pmid: 24909818 OpenUrl CrossRef PubMed 24. ↵ Givan SA , Bottoms CA , Spollen WG . Computational analysis of RNA-seq . Methods Mol Biol 883 : 201 – 219 , 2012 . doi: 10.1007/978-1-61779-839-9_16 . pmid: 22589136 OpenUrl CrossRef PubMed 25. ↵ Gómez-Picos P , Sifuentes-Romero I , Merchant-Larios H , Hernández-Cornejo R , Díaz-Hernández V , García-Gasca A . Expression of aromatase in the embryonic brain of the olive ridley sea turtle (Lepidochelys olivacea), and the effect of bisphenol-A in sexually differentiated embryos . Int J Dev Biol 58 : 733 – 741 , 2014 . doi: 10.1387/ijdb.140192ag . pmid: 26154314 OpenUrl CrossRef PubMed 26. ↵ GrandViewResearch . Global bisphenol A (BPA) market by application (appliances, automotive, consumer, construction, electrical & electronics) expected to reach USD 20.03 billion by 2020 . http://www.digitaljournal.com/pr/2009287 , (July 24, 2014) . 27. ↵ Grisham W , Powers AS . Effects of dorsal and medial cortex lesions on reversals in turtles . Physiol Behav 47 : 43 – 49 , 1990 . doi: 10.1016/0031-9384(90)90040-B . pmid: 2326343 OpenUrl CrossRef PubMed 28. ↵ Grisham W , Powers AS . Function of the dorsal and medial cortex of turtles in learning . Behav Neurosci 103 : 991 – 997 , 1989 . doi: 10.1037/0735-7044.103.5.991 . pmid: 2803566 OpenUrl CrossRef PubMed 29. ↵ Guevara R , Gianotti M , Roca P , Oliver J . Age and sex-related changes in rat brain mitochondrial function . Cell Physiol Biochem 27 : 201 – 206 , 2011 . doi: 10.1159/000327945 . pmid: 21471708 OpenUrl CrossRef PubMed 30. ↵ Gutzke WH , Chymiy DB . Sensitive periods during embryogeny for hormonally induced sex determination in turtles . Gen Comp Endocrinol 71 : 265 – 267 , 1988 . doi: 10.1016/0016-6480(88)90254-7 . pmid: 3203874 OpenUrl CrossRef PubMed Web of Science 31. ↵ Harding LB , Schultz IR , Goetz GW , Luckenbach JA , Young G , Goetz FW , Swanson P . High-throughput sequencing and pathway analysis reveal alteration of the pituitary transcriptome by 17α-ethynylestradiol (EE2) in female coho salmon, Oncorhynchus kisutch . Aquat Toxicol 142–143 : 146 – 163 , 2013 . doi: 10.1016/j.aquatox.2013.07.020 . pmid: 24007788 OpenUrl CrossRef PubMed 32. ↵ Hasegawa Y , Ogiue-Ikeda M , Tanabe N , Kimoto T , Hojo Y , Yamazaki T , Kawato S . Bisphenol A significantly modulates long-term depression in the hippocampus as observed by multi-electrode system . Neuro Endocrinol Lett 34 : 129 – 134 , 2013 . pmid: 23645310 OpenUrl PubMed 33. ↵ Hatef A , Zare A , Alavi SM , Habibi HR , Linhart O . Modulations in androgen and estrogen mediating genes and testicular response in male goldfish exposed to bisphenol A . Environ Toxicol Chem 31 : 2069 – 2077 , 2012 . doi: 10.1002/etc.1919 . pmid: 22714401 OpenUrl CrossRef PubMed 34. ↵ Ggplot2 elegant graphics for data analysis . http://isbndb.com/book/ggplot2_elegant_graphics_for_data_analysis . 35. ↵ MT-ND5 Gene . http://www.genecards.org/cgi-bin/carddisp.pl?gene=MT-ND5&keywords=ND5 . 36. ↵ https://www.ncbi.nlm.nih.gov/genome/?term=NC_001422.1 . 37. ↵ rgl: 3D Visualization Using OpenGL . https://cran.r-project.org/web/packages/rgl/index.html . 38. ↵ WGCNA: Weighted Correlation Network Analysis . https://cran.r-project.org/web/packages/WGCNA/index.html . 39. ↵ fastx_toolkit . https://github.com/agordon/fastx_toolkit . 40. ↵ RSEM_tutorial . https://github.com/bli25ucb/RSEM_tutorial . 41. ↵ RNA-Seq-Toolkit . https://github.com/sgivan/RNA-Seq-Toolkit . 42. ↵ GNU Bash . https://www.gnu.org/software/bash/ . 43. ↵ National Center for Biotechnology Information . https://www.ncbi.nlm.nih.gov/ . 44. ↵ Huang da W , Sherman BT , Lempicki RA . Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources . Nat Protoc 4 : 44 – 57 , 2009 . doi: 10.1038/nprot.2008.211 . pmid: 19131956 OpenUrl CrossRef PubMed Web of Science 45. ↵ Jandegian CM , Deem SL , Bhandari RK , Holliday CM , Nicks D , Rosenfeld CS , Selcer KW , Tillitt DE , Vom Saal FS , Vélez-Rivera V , Yang Y , Holliday DK . Developmental exposure to bisphenol A (BPA) alters sexual differentiation in painted turtles (Chrysemys picta) . Gen Comp Endocrinol 216 : 77 – 85 , 2015 . doi: 10.1016/j.ygcen.2015.04.003 . pmid: 25863134 OpenUrl CrossRef PubMed 46. ↵ Jašarević E , Geary DC , Rosenfeld CS . Sexually selected traits: a fundamental framework for studies on behavioral epigenetics . ILAR J 53 : 253 – 269 , 2012 . doi: 10.1093/ilar.53.3-4.253 . pmid: 23744965 OpenUrl Abstract / FREE Full Text 47. ↵ Jurka J , Kapitonov VV , Pavlicek A , Klonowski P , Kohany O , Walichiewicz J . Repbase Update, a database of eukaryotic repetitive elements . Cytogenet Genome Res 110 : 462 – 467 , 2005 . doi: 10.1159/000084979 . pmid: 16093699 OpenUrl CrossRef PubMed Web of Science 48. ↵ Kida YS , Kawamura T , Wei Z , Sogo T , Jacinto S , Shigeno A , Kushige H , Yoshihara E , Liddle C , Ecker JR , Yu RT , Atkins AR , Downes M , Evans RM . ERRs mediate a metabolic switch required for somatic cell reprogramming to pluripotency . Cell Stem Cell 16 : 547 – 555 , 2015 . doi: 10.1016/j.stem.2015.03.001 . pmid: 25865501 OpenUrl CrossRef PubMed 49. ↵ Kim D , Pertea G , Trapnell C , Pimentel H , Kelley R , Salzberg SL . TopHat2: accurate alignment of transcriptomes in the presence of insertions, deletions and gene fusions . Genome Biol 14 : R36 , 2013 . doi: 10.1186/gb-2013-14-4-r36 . pmid: 23618408 OpenUrl CrossRef PubMed 50. ↵ Kohno S , Bernhard MC , Katsu Y , Zhu J , Bryan TA , Doheny BM , Iguchi T , Guillette LJ Jr . . Estrogen receptor 1 (ESR1; ERα), not ESR2 (ERβ), modulates estrogen-induced sex reversal in the American alligator, a species with temperature-dependent sex determination . Endocrinology 156 : 1887 – 1899 , 2015 . doi: 10.1210/en.2014-1852 . pmid: 25714813 OpenUrl CrossRef PubMed 51. ↵ Kundakovic M , Gudsnuk K , Franks B , Madrid J , Miller RL , Perera FP , Champagne FA . Sex-specific epigenetic disruption and behavioral changes following low-dose in utero bisphenol A exposure . Proc Natl Acad Sci USA 110 : 9956 – 9961 , 2013 . doi: 10.1073/pnas.1214056110 . pmid: 23716699 OpenUrl Abstract / FREE Full Text 52. ↵ Lam SH , Hlaing MM , Zhang X , Yan C , Duan Z , Zhu L , Ung CY , Mathavan S , Ong CN , Gong Z . Toxicogenomic and phenotypic analyses of bisphenol-A early-life exposure toxicity in zebrafish . PLoS One 6 : e28273 , 2011 . doi: 10.1371/journal.pone.0028273 . pmid: 22194820 OpenUrl CrossRef PubMed 53. ↵ Langfelder P , Horvath S . WGCNA: an R package for weighted correlation network analysis . BMC Bioinformatics 9 : 559 , 2008 . doi: 10.1186/1471-2105-9-559 . pmid: 19114008 OpenUrl CrossRef PubMed 54. ↵ Langmead B , Salzberg SL . Fast gapped-read alignment with Bowtie 2 . Nat Methods 9 : 357 – 359 , 2012 . doi: 10.1038/nmeth.1923 . pmid: 22388286 OpenUrl CrossRef PubMed Web of Science 55. ↵ Langmead B , Trapnell C , Pop M , Salzberg SL . Ultrafast and memory-efficient alignment of short DNA sequences to the human genome . Genome Biol 10 : R25 , 2009 . doi: 10.1186/gb-2009-10-3-r25 . pmid: 19261174 OpenUrl CrossRef PubMed 56. ↵ Laurenson JP , Bloom RA , Page S , Sadrieh N . Ethinyl estradiol and other human pharmaceutical estrogens in the aquatic environment: a review of recent risk assessment data . AAPS J 16 : 299 – 310 , 2014 . doi: 10.1208/s12248-014-9561-3 . pmid: 24470211 OpenUrl CrossRef PubMed 57. ↵ Lee YM , Seo JS , Kim IC , Yoon YD , Lee JS . Endocrine disrupting chemicals (bisphenol A, 4-nonylphenol, 4-tert-octylphenol) modulate expression of two distinct cytochrome P450 aromatase genes differently in gender types of the hermaphroditic fish Rivulus marmoratus . Biochem Biophys Res Commun 345 : 894 – 903 , 2006 . doi: 10.1016/j.bbrc.2006.04.137 . pmid: 16707107 OpenUrl CrossRef PubMed Web of Science 58. ↵ Leng N , Dawson JA , Thomson JA , Ruotti V , Rissman AI , Smits BM , Haag JD , Gould MN , Stewart RM , Kendziorski C . EBSeq: an empirical Bayes hierarchical model for inference in RNA-seq experiments . Bioinformatics 29 : 1035 – 1043 , 2013 . doi: 10.1093/bioinformatics/btt087 . pmid: 23428641 OpenUrl Abstract / FREE Full Text 59. ↵ Li B , Dewey CN . RSEM: accurate transcript quantification from RNA-Seq data with or without a reference genome . BMC Bioinformatics 12 : 323 , 2011 . doi: 10.1186/1471-2105-12-323 . pmid: 21816040 OpenUrl CrossRef PubMed 60. ↵ Luo W , Brouwer C . Pathview: an R/Bioconductor package for pathway-based data integration and visualization . Bioinformatics 29 : 1830 – 1831 , 2013 . doi: 10.1093/bioinformatics/btt285 . pmid: 23740750 OpenUrl Abstract / FREE Full Text 61. ↵ Luo W , Friedman MS , Shedden K , Hankenson KD , Woolf PJ . GAGE: generally applicable gene set enrichment for pathway analysis . BMC Bioinformatics 10 : 161 , 2009 . doi: 10.1186/1471-2105-10-161 . pmid: 19473525 OpenUrl CrossRef PubMed 62. ↵ Lutz PL . Mechanisms for anoxic survival in the vertebrate brain . Annu Rev Physiol 54 : 601 – 618 , 1992 . doi: 10.1146/annurev.ph.54.030192.003125 . pmid: 1348613 OpenUrl CrossRef PubMed Web of Science 63. ↵ Mahmoud IY , Hess CL , Klicka J . Normal embryonic stages of the western painted turtle, Chrysemys picta bellii . J Morphol 141 : 269 – 279 , 1973 . doi: 10.1002/jmor.1051410303 . pmid: 4753442 OpenUrl CrossRef PubMed 64. ↵ Manshack LK , Conard CM , Johnson SA , Alex JM , Bryan SJ , Deem SL , Holliday DK , Ellersieck MR , Rosenfeld CS . Effects of developmental exposure to bisphenol A and ethinyl estradiol on spatial navigational learning and memory in painted turtles (Chrysemys picta) . Horm Behav 85 : 48 – 55 , 2016 . doi: 10.1016/j.yhbeh.2016.07.009 . pmid: 27476434 OpenUrl CrossRef PubMed 65. ↵ Marquez EC , Traylor-Knowles N , Novillo-Villajos A , Callard IP . Novel cDNA sequences of aryl hydrocarbon receptors and gene expression in turtles (Chrysemys picta and Pseudemys scripta) exposed to different environments . Comp Biochem Physiol C Toxicol Pharmacol 154 : 305 – 317 , 2011 . doi: 10.1016/j.cbpc.2011.06.017 . pmid: 21763458 OpenUrl CrossRef PubMed 66. ↵ Martin M . Cutadapt removes adaptor sequences from high-throughput sequencing reads . EMBnet.journal 17 : 10 , 2011 . doi: 10.14806/ej.17.1.200 . OpenUrl CrossRef 67. ↵ Masoner JR , Kolpin DW , Furlong ET , Cozzarelli IM , Gray JL , Schwab EA . Contaminants of emerging concern in fresh leachate from landfills in the conterminous United States . Environ Sci Process Impacts 16 : 2335 – 2354 , 2014 . doi: 10.1039/C4EM00124A . pmid: 25111596 OpenUrl CrossRef PubMed 68. ↵ Matsushima A , Kakuta Y , Teramoto T , Koshiba T , Liu X , Okada H , Tokunaga T , Kawabata S , Kimura M , Shimohigashi Y . Structural evidence for endocrine disruptor bisphenol A binding to human nuclear receptor ERR gamma . J Biochem 142 : 517 – 524 , 2007 . doi: 10.1093/jb/mvm158 . pmid: 17761695 OpenUrl Abstract / FREE Full Text 69. ↵ Menzel R , Swain SC , Hoess S , Claus E , Menzel S , Steinberg CE , Reifferscheid G , Stürzenbaum SR . Gene expression profiling to characterize sediment toxicity–a pilot study using Caenorhabditis elegans whole genome microarrays . BMC Genomics 10 : 160 , 2009 . doi: 10.1186/1471-2164-10-160 . pmid: 19366437 OpenUrl CrossRef PubMed 70. ↵ Okada H , Tokunaga T , Liu X , Takayanagi S , Matsushima A , Shimohigashi Y . Direct evidence revealing structural elements essential for the high binding ability of bisphenol A to human estrogen-related receptor-gamma . Environ Health Perspect 116 : 32 – 38 , 2008 . doi: 10.1289/ehp.10587 . pmid: 18197296 OpenUrl CrossRef PubMed Web of Science 71. ↵ Park K , Kwak IS . Gene expression of ribosomal protein mRNA in Chironomus riparius: effects of endocrine disruptor chemicals and antibiotics . Comp Biochem Physiol C Toxicol Pharmacol 156 : 113 – 120 , 2012 . doi: 10.1016/j.cbpc.2012.05.002 . pmid: 22609975 OpenUrl CrossRef PubMed 72. ↵ Pei L , Mu Y , Leblanc M , Alaynick W , Barish GD , Pankratz M , Tseng TW , Kaufman S , Liddle C , Yu RT , Downes M , Pfaff SL , Auwerx J , Gage FH , Evans RM . Dependence of hippocampal function on ERRγ-regulated mitochondrial metabolism . Cell Metab 21 : 628 – 636 , 2015 . doi: 10.1016/j.cmet.2015.03.004 . pmid: 25863252 OpenUrl CrossRef PubMed 73. ↵ Petrillo M , Ritter CA , Powers AS . A role for acetylcholine in spatial memory in turtles . Physiol Behav 56 : 135 – 141 , 1994 . doi: 10.1016/0031-9384(94)90271-2 . pmid: 8084892 OpenUrl CrossRef PubMed 74. ↵ Powers AS , Hogue P , Lynch C , Gattuso B , Lissek S , Nayal C . Role of acetylcholine in negative patterning in turtles (Chrysemys picta) . Behav Neurosci 123 : 804 – 809 , 2009 . doi: 10.1037/a0016320 . pmid: 19634938 OpenUrl CrossRef PubMed 75. ↵ Qin F , Wang L , Wang X , Liu S , Xu P , Wang H , Wu T , Zhang Y , Zheng Y , Li M , Zhang X , Yuan C , Hu G , Wang Z . Bisphenol A affects gene expression of gonadotropin-releasing hormones and type I GnRH receptors in brains of adult rare minnow Gobiocypris rarus . Comp Biochem Physiol C Toxicol Pharmacol 157 : 192 – 202 , 2013 . doi: 10.1016/j.cbpc.2012.11.002 . pmid: 23174456 OpenUrl CrossRef PubMed 76. ↵ Rettberg JR , Yao J , Brinton RD . Estrogen: a master regulator of bioenergetic systems in the brain and body . Front Neuroendocrinol 35 : 8 – 30 , 2014 . doi: 10.1016/j.yfrne.2013.08.001 . pmid: 23994581 OpenUrl CrossRef PubMed 77. ↵ Rhee JS , Kim BM , Lee BY , Hwang UK , Lee YS , Lee JS . Cloning of circadian rhythmic pathway genes and perturbation of oscillation patterns in endocrine disrupting chemicals (EDCs)-exposed mangrove killifish Kryptolebias marmoratus . Comp Biochem Physiol C Toxicol Pharmacol 164 : 11 – 20 , 2014 . doi: 10.1016/j.cbpc.2014.04.001 . pmid: 24726801 OpenUrl CrossRef PubMed 78. ↵ Rhee JS , Kim BM , Lee CJ , Yoon YD , Lee YM , Lee JS . Bisphenol A modulates expression of sex differentiation genes in the self-fertilizing fish, Kryptolebias marmoratus . Aquat Toxicol 104 : 218 – 229 , 2011 . doi: 10.1016/j.aquatox.2011.04.020 . pmid: 21632026 OpenUrl CrossRef PubMed 79. ↵ Richter CA , Martyniuk CJ , Annis ML , Brumbaugh WG , Chasar LC , Denslow ND , Tillitt DE . Methylmercury-induced changes in gene transcription associated with neuroendocrine disruption in largemouth bass (Micropterus salmoides) . Gen Comp Endocrinol 203 : 215 – 224 , 2014 . doi: 10.1016/j.ygcen.2014.03.029 . pmid: 24694518 OpenUrl CrossRef PubMed 80. ↵ Robin ED , Lewiston N , Newman A , Simon LM , Theodore J . Bioenergetic pattern of turtle brain and resistance to profound loss of mitochondrial ATP generation . Proc Natl Acad Sci USA 76 : 3922 – 3926 , 1979 . doi: 10.1073/pnas.76.8.3922 . pmid: 291050 OpenUrl Abstract / FREE Full Text 81. ↵ Roth TC II . , Krochmal AR . Pharmacological evidence is consistent with a prominent role of spatial memory in complex navigation . Proc Biol Sci 283 : 20152548 , 2016 . doi: 10.1098/rspb.2015.2548 . pmid: 26865305 OpenUrl Abstract / FREE Full Text 82. ↵ Shannon P , Markiel A , Ozier O , Baliga NS , Wang JT , Ramage D , Amin N , Schwikowski B , Ideker T . Cytoscape: a software environment for integrated models of biomolecular interaction networks . Genome Res 13 : 2498 – 2504 , 2003 . doi: 10.1101/gr.1239303 . pmid: 14597658 OpenUrl Abstract / FREE Full Text 83. ↵ Sheehan DM , Willingham E , Gaylor D , Bergeron JM , Crews D . No threshold dose for estradiol-induced sex reversal of turtle embryos: how little is too much? Environ Health Perspect 107 : 155 – 159 , 1999 . doi: 10.1289/ehp.99107155 . pmid: 9924012 OpenUrl CrossRef PubMed Web of Science 84. ↵ Shioda T , Chesnes J , Coser KR , Zou L , Hur J , Dean KL , Sonnenschein C , Soto AM , Isselbacher KJ . Importance of dosage standardization for interpreting transcriptomal signature profiles: evidence from studies of xenoestrogens . Proc Natl Acad Sci USA 103 : 12033 – 12038 , 2006 . doi: 10.1073/pnas.0605341103 . pmid: 16882715 OpenUrl Abstract / FREE Full Text 85. ↵ Smith RN , Aleksic J , Butano D , Carr A , Contrino S , Hu F , Lyne M , Lyne R , Kalderimis A , Rutherford K , Stepan R , Sullivan J , Wakeling M , Watkins X , Micklem G . InterMine: a flexible data warehouse system for the integration and analysis of heterogeneous biological data . Bioinformatics 28 : 3163 – 3165 , 2012 . doi: 10.1093/bioinformatics/bts577 . pmid: 23023984 OpenUrl Abstract / FREE Full Text 86. ↵ Striedter GF . Evolution of the hippocampus in reptiles and birds . J Comp Neurol 524 : 496 – 517 , 2016 . doi: 10.1002/cne.23803 . pmid: 25982694 OpenUrl CrossRef PubMed 87. ↵ Szklarczyk D , Franceschini A , Wyder S , Forslund K , Heller D , Huerta-Cepas J , Simonovic M , Roth A , Santos A , Tsafou KP , Kuhn M , Bork P , Jensen LJ , von Mering C . STRING v10: protein-protein interaction networks, integrated over the tree of life . Nucleic Acids Res 43 : D447 – D452 , 2015 . doi: 10.1093/nar/gku1003 . pmid: 25352553 OpenUrl Abstract / FREE Full Text 88. ↵ Takayanagi S , Tokunaga T , Liu X , Okada H , Matsushima A , Shimohigashi Y . Endocrine disruptor bisphenol A strongly binds to human estrogen-related receptor gamma (ERRgamma) with high constitutive activity . Toxicol Lett 167 : 95 – 105 , 2006 . doi: 10.1016/j.toxlet.2006.08.012 . pmid: 17049190 OpenUrl CrossRef PubMed Web of Science 89. ↵ Takenaka S . Studies on the effect of sex-hormones on oxidative phosphorylation . J Jpn Obstet Gynecol Soc 12 : 89 – 93 , 1965 . pmid: 5868705 OpenUrl PubMed 90. ↵ Tanabe N , Yoshino H , Kimoto T , Hojo Y , Ogiue-Ikeda M , Shimohigashi Y , Kawato S . Nanomolar dose of bisphenol A rapidly modulates spinogenesis in adult hippocampal neurons . Mol Cell Endocrinol 351 : 317 – 325 , 2012 . doi: 10.1016/j.mce.2012.01.008 . pmid: 22281313 OpenUrl CrossRef PubMed 91. ↵ Tohmé M , Prud’homme SM , Boulahtouf A , Samarut E , Brunet F , Bernard L , Bourguet W , Gibert Y , Balaguer P , Laudet V . Estrogen-related receptor γ is an in vivo receptor of bisphenol A . FASEB J 28 : 3124 – 3133 , 2014 . doi: 10.1096/fj.13-240465 . pmid: 24744145 OpenUrl Abstract / FREE Full Text 92. ↵ Trapnell C , Roberts A , Goff L , Pertea G , Kim D , Kelley DR , Pimentel H , Salzberg SL , Rinn JL , Pachter L . Differential gene and transcript expression analysis of RNA-seq experiments with TopHat and Cufflinks . Nat Protoc 7 : 562 – 578 , 2012 . doi: 10.1038/nprot.2012.016 . pmid: 22383036 OpenUrl CrossRef PubMed 93. ↵ Waddington CH . Introduction to Modern Genetics . New York : Macmillan , 1939 . 94. ↵ Wang RL , Bencic D , Villeneuve DL , Ankley GT , Lazorchak J , Edwards S . A transcriptomics-based biological framework for studying mechanisms of endocrine disruption in small fish species . Aquat Toxicol 98 : 230 – 244 , 2010 . doi: 10.1016/j.aquatox.2010.02.021 . pmid: 20359757 OpenUrl CrossRef PubMed 95. ↵ Willingham E , Crews D . Sex reversal effects of environmentally relevant xenobiotic concentrations on the red-eared slider turtle, a species with temperature-dependent sex determination . Gen Comp Endocrinol 113 : 429 – 435 , 1999 . doi: 10.1006/gcen.1998.7221 . pmid: 10068503 OpenUrl CrossRef PubMed Web of Science 96. ↵ Wirbisky SE , Weber GJ , Sepúlveda MS , Xiao C , Cannon JR , Freeman JL . Developmental origins of neurotransmitter and transcriptome alterations in adult female zebrafish exposed to atrazine during embryogenesis . Toxicology 333 : 156 – 167 , 2015 . doi: 10.1016/j.tox.2015.04.016 . pmid: 25929836 OpenUrl CrossRef PubMed 97. ↵ Wood CE , Rabaglino MB , Richards E , Denslow N , Zarate MA , Chang EI , Keller-Wood M . Transcriptomics of the fetal hypothalamic response to brachiocephalic occlusion and estradiol treatment . Physiol Genomics 46 : 523 – 532 , 2014 . doi: 10.1152/physiolgenomics.00186.2013 . pmid: 24824211 OpenUrl Abstract / FREE Full Text 98. ↵ Yao J , Brinton RD . Estrogen regulation of mitochondrial bioenergetics: implications for prevention of Alzheimer’s disease . Adv Pharmacol 64 : 327 – 371 , 2012 . doi: 10.1016/B978-0-12-394816-8.00010-6 . pmid: 22840752 OpenUrl CrossRef PubMed 99. ↵ Yaoi T , Itoh K , Nakamura K , Ogi H , Fujiwara Y , Fushiki S . Genome-wide analysis of epigenomic alterations in fetal mouse forebrain after exposure to low doses of bisphenol A . Biochem Biophys Res Commun 376 : 563 – 567 , 2008 . doi: 10.1016/j.bbrc.2008.09.028 . pmid: 18804091 OpenUrl CrossRef PubMed Web of Science 100. ↵ Zhang Z , Le Velly M , Rhind SM , Kyle CE , Hough RL , Duff EI , McKenzie C . A study on temporal trends and estimates of fate of Bisphenol A in agricultural soils after sewage sludge amendment . Sci Total Environ 515–516 : 1 – 11 , 2015 . doi: 10.1016/j.scitotenv.2015.01.053 . pmid: 25682473 OpenUrl CrossRef PubMed View Abstract Previous Next Back to top Table of Contents Keywords turtle brain endocrine-disrupting chemicals estrogens pathway analysis Integrative Correlation Analyses RNA-Seq Article Abstract MATERIALS AND METHODS RESULTS DISCUSSION GRANTS DISCLOSURES AUTHOR CONTRIBUTIONS ACKNOWLEDGMENTS REFERENCES Figures & Data Info PDF Alert me when this article is cited Alert me if a correction is posted Email Thank you for your interest in spreading the word on Physiological Genomics. NOTE: We only request your email address so that the person you are recommending the page to knows that you wanted them to see it, and that it is not junk mail. We do not capture any email address. Your Email * Your Name * Send To * Enter multiple addresses on separate lines or separate them with commas. You are going to email the following Transcriptomic alterations in the brain of painted turtles (Chrysemys picta) developmentally exposed to bisphenol A or ethinyl estradiol Message Subject (Your Name) has sent you a message from Physiological Genomics Message Body (Your Name) thought you would like to see the Physiological Genomics web site. Your Personal Message Print Citation Tools Transcriptomic alterations in the brain of painted turtles ( Chrysemys picta ) developmentally exposed to bisphenol A or ethinyl estradiol Lindsey K. Manshack , Caroline M. Conard , Sara J. Bryan , Sharon L. Deem , Dawn K. Holliday , Nathan J. Bivens , Scott A. Givan , Cheryl S. Rosenfeld Physiological Genomics Apr 2017, 49 (4) 201-215; DOI: 10.1152/physiolgenomics.00103.2016 Citation Manager Formats BibTeX Bookends EasyBib EndNote (tagged) EndNote 8 (xml) Medlars Mendeley Papers RefWorks Tagged Ref Manager RIS Zotero Share Lindsey K. Manshack , Caroline M. Conard , Sara J. Bryan , Sharon L. Deem , Dawn K. Holliday , Nathan J. Bivens , Scott A. Givan , Cheryl S. Rosenfeld Physiological Genomics Apr 2017, 49 (4) 201-215; DOI: 10.1152/physiolgenomics.00103.2016 Permalink: Copy View Full Page PDF Related Articles Cited By... 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TI - Transcriptomic alterations in the brain of painted turtles (Chrysemys picta) developmentally exposed to bisphenol A or ethinyl estradiol
JO - Physiological Genomics
DO - 10.1152/physiolgenomics.00103.2016
DA - 2017-04-01
UR - https://www.deepdyve.com/lp/the-american-physiological-society/transcriptomic-alterations-in-the-brain-of-painted-turtles-chrysemys-tLH8vrqQPY
SP - 201
VL - 49
IS - 4
DP - DeepDyve
ER -