The polychaete, Perinereis nuntia ESTs and its use to uncover potential biomarker genes for molecular ecotoxicological studies

Environmental Research

Volumn 112, Issue , 2012, Pages 48-57

  Rhee, Jae Sung ^a   Won, Eun Ji ^b   Kim, Ryeo Ok ^a   Choi, Beom Soon ^a,c   Choi, Ik Young ^c   Park, Gyung Soo ^d   Shin, Kyung Hoon ^b   Lee, Young Mi ^e   Lee, Jae Seong ^a  

^a Hanyang University   (South Korea)

^b Hanyang University   (South Korea)

^c Seoul National University   (South Korea)

^d Anyang University   (South Korea)

^e Sangmyung University   (South Korea)

Author keywords

Antioxidant; Biomarker; Ecotoxicology; EST; GS FLX; Perinereis nuntia

Indexed keywords

BIOLOGICAL MARKER; COMPLEMENTARY DNA; CONTIG; CYTOCHROME P450; HEAT SHOCK PROTEIN; MESSENGER RNA; RNA;

AQUACULTURE; BENTHOS; BIOMARKER; COASTAL ZONE; CYTOCHROME; DATABASE; ECOTOXICOLOGY; ENVIRONMENTAL STRESS; GENE; GENOMICS; MITOCHONDRIAL DNA; MOLECULAR ANALYSIS; POLYCHAETE; TOXICITY;

AMINO ACID SEQUENCE; ARTICLE; CONTROLLED STUDY; DNA SYNTHESIS; ECOTOXICOLOGY; EXPRESSED SEQUENCE TAG; GENE; GENOMICS; HIGH THROUGHPUT SEQUENCING; NONHUMAN; PERINEREIS NUNTIA; PRIORITY JOURNAL; PYROSEQUENCING; SEDIMENT; SOUTH KOREA; STRESS; WORM;

ANIMALS; DATABASES, GENETIC; DNA, COMPLEMENTARY; ECOTOXICOLOGY; ENVIRONMENTAL MONITORING; EXPRESSED SEQUENCE TAGS; GENE LIBRARY; GENETIC MARKERS; GEOLOGIC SEDIMENTS; HIGH-THROUGHPUT SCREENING ASSAYS; POLYCHAETA; RNA; WATER POLLUTANTS, CHEMICAL;

SOUTH KOREA;

PERINEREIS NUNTIA; POLYCHAETA;

EID: 84655173201     PISSN: 00139351     EISSN: 10960953     Source Type: Journal    
DOI: 10.1016/j.envres.2011.09.012     Document Type: Article

References (82)

1. Abele-Oeschger D., Oescheger R., Theede H. Biochemical adaptations of Nereis diversicolor (Polychaeta) to temporarily increased hydrogen peroxide levels in intertidal sandflats. Mar. Ecol. Prog. Ser. 1994, 106:101-110.
2. Abele D., Puntarulo S. Formation of reactive species and induction of antioxidant defence systems in polar and temperate marine invertebrates and fish. Comp. Biochem. Physiol. A 2004, 138:405-415.
3. Adams M.D., Kelley J.M., Gocayne J.D., Dubnick M., Polymeropoulos M.H., Xiao H., Merril C.R., Wu A., Olde B., Moreno R.F., et al. Complementary DNA sequencing: expressed sequence tags and human genome project. Science 1991, 252:1651-1656.
4. Belan T.A. Marine environmental quality assessment using polychaete taxocene characteristics in Vancouver Harbour. Mar. Environ. Res. 2004, 57:89-101.
5. Blanchette B., Feng X., Singh B.R. Marine glutathione S-transferases. Mar. Biotechnol. 2007, 9:513-542.
6. Bocchetti R., Fattorini D., Gambi M.C., Regoli F. Trace metal concentrations and susceptibility to oxidative stress in the polychaete Sabella spallanzanii (Gmelin) (Sabellidae): potential role of antioxidants in revealing stressful environmental conditions in the Mediterranean. Arch. Environ. Contam. Toxicol. 2004, 46:353-361.
7. Buchner T., Abele-Oeschger D., Theede H. Aspects of antioxidant status in the polychaete Arenicola marina: tissue and subcellular distribution, and reaction to environmental hydrogen peroxide and elevated temperatures. Mar. Ecol. Prog. Ser 1996, 143:141-150.
8. Choi Y.K., Jo P.G., Choi C.Y. Cadmium affects the expression of heat shock protein 90 and metallothionein mRNA in the Pacific oyster, Crassostrea gigas. Comp. Biochem. Physiol. C 2008, 147:286-292.
9. Dean H.K. The use of polychaetes (Annelida) as indicator species of marine pollution: a review. Rev. Biol. Trop. 2008, 56:11-38.
10. Delcher A.L., Bratke K.A., Powers E.C., Salzberg S.L. Identifying bacterial genes and endosymbiont DNA with Glimmer. Bioinformatics 2007, 23:673-679.
11. Dong Y., Miller L.P., Sanders J.G., Somero G.N. Heat-shock protein 70 (Hsp70) expression in four limpets of the genus Lottia: Interspecific variation in constitutive and inducible synthesis correlates with in situ exposure to heat stress. Biol. Bull. 2008, 215:173-181.
12. Durou C., Poirier L., Amiard J.C., Budzinski H., Gnassia-Barelli M., Lemenach K., Peluhet L., Mouneyrac C., Roméo M., Amiard-Triquet C. Biomonitoring in a clean and a multi-contaminated estuary based on biomarkers and chemical analyses in the endobenthic worm Nereis diversicolor. Environ. Pollut. 2007, 148:445-458.
13. Feder M.E., Hofmann G.E. Heat-shock proteins, molecular chaperones, and the stress response: evolutionary and ecological physiology. Annu. Rev. Physiol. 1999, 61:243-282.
14. Fenet H., Casellas C., Bontoux J. Laboratory and field-caging studies on hepatic enzymatic activities in European eel and rainbow trout. Ecotoxicol. Environ. Saf. 1998, 40:137-143.
15. Ferreira-Cravo M., Ventura-Lima J., Sandrini J.Z., Amado L.L., Geracitano L.A., Rebelo M., Bianchini A., Monserrat J.M. Antioxidant responses in different body regions of the polychaeta Laeonereis acuta (Nereididae) exposed to copper. Ecotoxicol. Environ. Saf. 2009, 72:388-393.
16. Fink A.L. Chaperone-mediated protein folding. Physiol. Rev. 1999, 79:425-449.
17. Geracitano L.A., Monserrat J.M., Bianchini A. Physiological and antioxidant enzyme responses to acute and chronic exposure of Laeonereis acuta (Polychaeta, Nereididae) to copper. J. Exp. Mar. Biol. Ecol. 2002, 277:145-156.
18. Geracitano L.A., Monserrat J.M., Bianchini A. Oxidative stress responses in two populations of Laeonereis acuta (Polychaeta, Nereididae) after acute and chronic exposure to copper. Mar. Environ. Res. 2004, 58:1-17.
19. Guengerich F.P. Cytochrome P450 and chemical toxicology. Chem. Res. Toxicol. 2008, 21:70-83.
20. Hale M.C., McCormick C.R., Jackson J.R., Dewoody J.A. Next-generation pyrosequencing of gonad transcriptomes in the polyploid lake sturgeon (Acipenser fulvescens): the relative merits of normalization and rarefaction in gene discovery. BMC Genomics 2009, 29:203.
21. Hahn D.A., Ragland G.J., Shoemaker D.D., Denlinger D.L. Gene discovery using massively parallel pyrosequencing to develop ESTs for the flesh fly Sarcophaga crassipalpis. BMC Genomics 2009, 19:234.
22. Hayes J.D., Flanagan J.U., Jowsey I.R. Glutathione transferases. Annu. Rev. Pharmacol. Toxicol. 2005, 45:51-88.
23. Hernandez L.D., Vierling E. Expression of low molecular weight heat-shock proteins under field conditions. Plant Physiol. 1993, 101:1209-1216.
24. Howcroft C.F., Amorim M.J., Gravato C., Guilhermino L., Soares A.M. Effects of natural and chemical stressors on Enchytraeus albidus: can oxidative stress parameters be used as fast screening tools for the assessment of different stress impacts in soils?. Environ. Int. 2009, 35:318-324.
25. Ivanina A.V., Taylor C., Sokolova I.M. Effects of elevated temperature and cadmium exposure on stress protein response in eastern oysters Crassostrea virginica (Gmelin). Aquat. Toxicol. 2009, 19:245-254.
26. Iguchi T., Watanabe H., Katsu Y. Application of ecotoxicogenomics for studying endocrine disruption in vertebrates and invertebrates. Environ. Health Perspect. 2006, 114:101-105.
27. Jørgensen A., Rasmussen L.J., Andersen O. Characterisation of two novel Cyp4 genes from the marine polychaete Nereis virens and their involvement in pyrene hydroxylase activity. Biochem. Biophys. Res. Commun. 2005, 336:890-897.
28. Köhler H.R., Triebskorn R., Stöcker W., Kloetzel P.M., Alberti G. The 70 kD heat shock protein (hsp70) in soil invertebrates: a possible tool for monitoring environmental toxicants. Arch. Environ. Contam. Toxicol. 1992, 22:334-338.
29. Kristiansson E., Asker N., Förlin L., Larsson D.G. Characterization of the Zoarces viviparus liver transcriptome using massively parallel pyrosequencing. BMC Genomics 2009, 10:345.
30. Lee K.-W., Raisuddin S., Rhee J.-S., Hwang D.-S., Yu I.T., Lee Y.-M., Park H.G., Lee J.-S. Expression of glutathione S-transferase (GST) genes in the marine copepod Tigriopus japonicus exposed to trace metals. Aquat. Toxicol. 2008, 89:158-166.
31. Lee R.F., Singer S.C., Page D.S. Responses of cytochrome P-450 systems in marine crab and polychaetes to organic pollutants. Aquat. Toxicol. 1981, 1:355-365.
32. Li B., Bisgaard H.C., Forbes V. Identification and expression of two novel Cytochrome P450 genes, belonging to CYP4 and a new CYP331 family, in the polychaete Capitella capitata sp. I. Biochem. Biophys. Res. Commun. 2004, 325:510-517.
33. Lindquist S., Craig E.A. The heat-shock proteins. Annu. Rev. Genet. 1988, 22:631-677.
34. t method. Methods 2001, 25:402-408.
35. Marcano L., Nusetti O., Rodríguez-Grau J., Briceño J., Vilas J. Uptake and depuration of copper and zinc in relation to metal-binding protein in the polychaete Eurythoe complanata. Comp. Biochem. Physiol. C 1996, 114:179-184.
36. Marcano L., Nusetti O., Rodríguez-Grau J., Briceño J., Vilas J. Coelomic fluid lysozyme activity induction in the polychaete Eurythoe complanata as a biomarker of heavy metal toxicity. Bull. Environ. Contam. Toxicol. 1997, 59:22-28.
37. Macagno E.R., Gaasterland T., Edsall L., Bafna V., Soares M.B., Scheetz T., Casavant T., Da Silva C., Wincker P., Tasiemski A., Salzet M. Construction of a medicinal leech transcriptome database and its application to the identification of leech homologs of neural and innate immune genes. BMC Genomics 2010, 25:407.
38. Margulies M., et al. Genome sequencing in microfabricated high-density picolitre reactors. Nature 2005, 437:376-380.
39. Martín-Díaz M.L., Blasco J., Sales D., Delvalls T.A. Biomarkers study for sediment quality assessment in Spanish ports using the crab Carcinus maenas and the clam Ruditapes philippinarum. Arch. Environ. Contam. Toxicol. 2007, 53:66-76.
40. Meyer E., Aglyamova G.V., Wang S., Buchanan-Carter J., Abrego D., Colbourne J.K., Willis B.L., Matz M.V. Sequencing and de novo analysis of a coral larval transcriptome using 454 GSFlx. BMC Genomics 2009, 12:219.
41. Mićović V., Bulog A., Kučić N., Jakovac H., Radošević-Stašić B. Metallothioneins and heat shock proteins 70 in marine mussels as sensors of environmental pollution in Northern Adriatic Sea. Environ. Toxicol. Pharmacol. 2009, 28:439-447.
42. Morales-Caselles C., Lewis C., Riba I., DelValls T.Á., Galloway T. A multibiomarker approach using the polychaete Arenicola marina to assess oil-contaminated sediments. Environ. Sci. Pollut. Res. 2009, 16:618-629.
43. Moreira S.M., Guilhermino L. The use of Mytilus galloprovincialis acetylcholinesterase and glutathione S-transferases activities as biomarkers of environmental contamination along the northwest Portuguese coast. Environ. Monit. Assess. 2005, 105:309-325.
44. Nesto N., Cassin D., Da Ros L. Is the polychaete, Perinereis rullieri (Pilato 1974), a reliable indicator of PCB and PAH contaminants in coastal sediments?. Ecotoxicol. Environ. Saf. 2010, 73:143-151.
45. Nusetti O., Salazar-Lugo R., Rodríguez-Grau J., Vilas J. Immune and biochemical responses of the polychaete Eurythoe complanata exposed to sublethal concentration of copper. Comp. Biochem. Physiol. C 1998, 119:177-183.
46. Nusetti O., Esclapés M., Salazar G., Nusetti S., Pulido S. Biomarkers of oxidative stress in the polychaete Eurythoe complanata (Amphinomidae) under short term copper exposure. Bull. Environ. Contam. Toxicol. 2001, 66:576-581.
47. Nusetti O., Zapata-Vívenes E., Esclapés M.M., Rojas A. Antioxidant enzymes and tissue regeneration in Eurythoe complanata (Polychaeta: Amphinomidae) exposed to used vehicle crankcase oil. Arch. Environ. Contam. Toxicol. 2005, 48:509-514.
48. Oberdörster E., Rittschof D., McClellan-Green P. Induction of cytochrome P450 3A and heat shock protein by tributyltin in blue crab, Callinectes sapidus. Aquat. Toxicol. 1998, 41:83-100.
49. Pastore A., Federici G., Bertini E., Piemonte F. Analysis of glutathione: implication in redox and detoxification. Clin. Chim. Acta 2003, 333:19-39.
50. Paul C., Teng S., Saunders P.T. A single, mild, transient scrotal heat stress causes hypoxia and oxidative stress in mouse testes, which induces germ cell death. Biol. Reprod. 2009, 80:913-919.
51. Pérez E., Blasco J., Solé M. Biomarker responses to pollution in two invertebrate species: Scrobicularia plana and Nereis diversicolor from the Cádiz bay (SW Spain). Mar. Environ. Res. 2004, 58:275-279.
52. Pirooznia M., Gong P., Guan X., Inouye L.S., Yang K., Perkins E.J., Deng Y. Cloning, analysis and functional annotation of expressed sequence tags from the Earthworm Eisenia fetida. BMC Bioinformatics 2007, 1:8.
53. Raible F., Tessmar-Raible K., Osoegawa K., Wincker P., Jubin C., Balavoine G., Ferrier D., Benes V., de Jong P., Weissenbach J., Bork P., Arendt D. Vertebrate-type intron-rich genes in the marine annelid Platynereis dumerilii. Science 2005, 310:1325-1326.
54. Ramakrishna W., Deng Z., Ding C.K., Handa A.K., Ozminkowski R.H. A novel small heat shock protein gene, vis1, contributes to pectin depolymerization and juice viscosity in tomato fruit. Plant Physiol. 2003, 131:725-735.
55. Reish D.J., Bernard J.L. Field toxicity tests in marine water utilizing the polychaetous annelid Capitella capitata (Fabricius). Pacific Nat. 1960, 1:1-8.
56. Rewitz K., Kjellerup C., Jørgensen A., Petersen C., Andersen O. Identification of two Nereis virens (annelida: Polychaeta) cytochromes P450 and induction by xenobiotics. Comp. Biochem. Physiol. C 2004, 138:89-96.
57. Reynoldson T.B. Interactions between sediment contaminants and benthic organisms. Hydrobiologia 1987, 149:53-66.
58. Rhee J.-S., Lee Y.-M., Hwang D.-S., Won E.-J., Raisuddin S., Shin K.-H., Lee J.-S. Molecular cloning, expression, biochemical characteristics, and biomarker potential of theta class glutathione S-transferase (GST-T) from the polychaete Neanthes succinea. Aquat. Toxicol. 2007, 83:104-115.
59. Rhee J.-S., Lee Y.-M., Hwang D.-S., Lee K.-W., Kim I.-C., Raisuddin S., Shin K.-H., Lee J.-S. Molecular cloning and characterization of omega class glutathione S-transferase (GST-O) from the polychaete Neanthes succinea: biochemical comparison with theta class glutathione S-transferase (GST-T). Comp. Biochem. Physiol. C 2007, 146:471-477.
60. Rhee J.-S., Raisuddin S., Lee K.W., Seo J.-S., Ki J.-S., Kim I.-C., Park H.-G., Lee J.-S. Heat shock protein (Hsp) gene responses of the intertidal copepod Tigriopus japonicus to environmental toxicants. Comp. Biochem. Physiol. C 2009, 149:104-112.
61. Rhee J.-S., Won E.-J., Kim R.-O., Lee J., Shin K.-H., Lee J.-S. Expression of superoxide dismutase (SOD) genes from the copper-exposed polychaete, Neanthes succinea. Mar. Pollut. Bull. 2011, 63:277-286.
62. Roberts D.A., Hofmann G.E., Somero G.N. Heat-shock protein expression in Mytilus californianus: acclimatization (seasonal and tidal-height comparisons) and acclimation effects. Biol. Bull. 1997, 192:309-320.
63. Rosa C.E., Iurman M.G., Abreu P.C., Geracitano L.A., Monserrat J.M. Antioxidant mechanisms of the Nereidid Laeonereis acuta (Anelida: Polychaeta) to cope with environmental hydrogen peroxide. Physiol. Biochem. Zool. 2005, 78:641-649.
64. Ruffin P., Demuynck S., Hilbert J.L., Dhainaut A. Stress proteins in the polychaete annelid Nereis diversicolor induced by heat shock or cadmium exposure. Biochimie 1994, 76:423-427.
65. Samuelson G.M. Polychaetes as indicators of environmental disturbance on subarctic tidal flats, Iqaluit, Baffin Island, Nunavut Territory. Mar. Pollut. Bull. 2001, 42:733-741.
66. Sandrini J.Z., Lima J.V., Regoli F., Fattorini D., Notti A., Marins L.F., Monserrat J.M. Antioxidant responses in the nereidid Laeonereis acuta (Annelida, Polychaeta) after cadmium exposure. Ecotoxicol. Environ. Saf 2008, 70:115-120.
67. Scaps P., Demuynck S., Descamps M., Dhainaut A. Effects of organophosphate and carbamate pesticides on acetylcholinesterase and choline acetyltransferase activities of the polychaete Nereis diversicolor. Arch. Environ. Contam. Toxicol. 1997, 33:203-208.
68. Scaps P., Borot O. Acetylcholinesterase activity of the polychaete Nereis diversicolor: effects of temperature and salinity. Comp. Biochem. Physiol 2000, C125:377-383.
69. Shin H., Hirst M., Bainbridge M.N., Magrini V., Mardis E., Moerman D.G., Marra M.A., Baillie D.L., Jones S.J. Transcriptome analysis for Caenorhabditis elegans based on novel expressed sequence tags. BMC Biol. 2008, 8:30.
70. Snape J.R., Maund S.J., Pickford D.B., Hutchinson T.H. Ecotoxicogenomics: the challenge of integrating genomics into aquatic and terrestrial ecotoxicology. Aquat. Toxicol. 2004, 14:143-154.
71. Sun F.H., Zhou Q.X. Oxidative stress biomarkers of the polychaete Nereis diversicolor exposed to cadmium and petroleum hydrocarbons. Ecotoxicol. Environ. Saf. 2008, 70:106-114.
72. Tairova Z.M., Giessing A.M., Hansen R., Andersen O. 1-Hydroxypyrene as a biomarker of PAH exposure in the marine polychaete Nereis diversicolor. Mar. Environ. Res. 2009, 67:38-46.
73. Takahashi T., McDougall C., Troscianko J., Chen W.-C., Nagarajan A.J., Shimeld S.M., Ferrier D.E.K. An EST screen from the annelid Pomatoceros lamarckii reveals patterns of gene loss and gain in animals. BMC Evol. Biol. 2009, 9:240.
74. Tompkins L.M., Wallace A.D. Mechanisms of cytochrome P450 induction. J. Biochem. Mol. Toxicol. 2007, 21:176-181.
75. Ventura-Lima J., Sandrini J.Z., Cravo M.F., Piedras F.R., Moraes T.B., Fattorini D., Notti A., Regoli F., Geracitano L.A., Marins L.F., Monserrat J.M. Toxicological responses in Laeonereis acuta (annelida, polychaeta) after arsenic exposure. Environ. Int. 2007, 33:559-564.
76. Venturini N., Tommasi L.R. Polycyclic aromatic hydrocarbons and changes in the trophic structure of polychaete assemblages in sediments of Todos os Santos Bay, Northeastern, Brazil. Mar. Pollut. Bull. 2004, 48:97-1017.
77. Wang F., Yang H., Gao F., Liu G. Effects of acute temperature or salinity stress on the immune response in sea cucumber, Apostichopus japonicas. Comp. Biochem. Physiol. A 2008, 151:491-498.
78. Werner I. The influence of salinity on the heat-shock protein response of Potamocorbula amurensis (Bivalvia). Mar. Environ. Res. 2004, 58:803-807.
79. Won E.-J., Raisuddin S., Shin K.-H. Evaluation of induction of metallothionein-like proteins (MTLPs) in the polychaetes for biomonitoring of heavy metal pollution in marine sediments. Mar. Pollut. Bull. 2008, 57:544-551.
80. Won E.-J., Kim R.-O., Rhee J.-S., Park G.S., Lee J., Shin K.-H., Lee Y.-M., Lee J.-S. Response of glutathione S-transferase (GST) genes to cadmium exposure in the marine pollution indicator worm, Perinereis nuntia. Comp. Biochem. Physiol. C 2011, 154:82-92.
81. Woodin S.A. Polychaete abundance patterns in a marine soft-sediment environment: the importance of biological interactions. Ecol. Monogr. 1974, 44:171-187.
82. Zagrobelny M., Scheibye-Alsing K., Jensen N.B., Møller B.L., Gorodkin J., Bak S. 454 pyrosequencing based transcriptome analysis of Zygaena filipendulae with focus on genes involved in biosynthesis of cyanogenic glucosides. BMC Genomics 2009, 2:574.