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Data

Primary Data


Nightingales_-_Google_Fusion_Tables_1970319C.png

Secondary Data

  • FigShare
  • GitHub

https://github.com/sr320/LabDocs

https://github.com/sr320/qdod/wiki

  • Lab Notebooks


Nightingales_-_Google_Fusion_Tables_1970319C.png


Presentations


Peer-Reviewed Publications

Timmins-Schiffman E, Coffey WD, Hua W, Nunn BL, Dickinson GH and Roberts SB. (2014). Shotgun proteomics reveals physiological response to ocean acidification in Crassostrea gigas BMC Genomics 2014, 15:951 doi:10.1186/1471-2164-15-951

Olson CE and Roberts SB. (2014). Genome-wide profiling of DNA methylation and gene expression in Crassostrea gigas male gametes Frontiers in Physiology. 5:224. doi: 10.3389/fphys.2014.0022

Gavery MR and Roberts SB. (2014) A context specific role for DNA methylation in bivalves Briefings in Functional Genomics. doi:10.1093/bfgp/elt054 (pdf)

Gavery MR and Roberts SB. (2013) Predominant intragenic methylation is associated with gene expression characteristics in a bivalve mollusc PeerJ 1:e215. doi:10.7717/peerj.215

Garcia-Vedrenne AE, Groner M, Page-Karjian A, Siegmund G-F, Singhal S, Sziklay J and Roberts SB. (2013) Development of Genomic Resources for a thraustochytrid Pathogen and Investigation of Temperature Influences on Gene Expression PLoS ONE 8(9): e74196. doi:10.1371/journal.pone.0074196

Storer CS, Quinn TP and Roberts SB. (2013) Quantitative PCR analysis used to characterize physiological changes in brain tissue of senescent sockeye salmon Biogerontology. doi:10.1007/s10522-013-9448-1 (pdf)

Burge CA, Mouchka ME, Harvell CD and Roberts SB. (2013) Immune response of the Caribbean sea fan, Gorgonia ventalina, exposed to an Aplanochytrium parasite as revealed by transcriptome sequencing Frontiers in Physiology 4:180. doi:10.3389/fphys.2013.00180

Timmins-Schiffman EB, Nunn BL, Goodlett DR and Roberts SB. (2013) Shotgun proteomics as a viable approach for biological discovery in the Pacific oyster Conservation Physiology. doi:10.1093/conphys/cot009

Timmins-Schiffman EB, Friedman CS, Metzger DC, White SJ and Roberts SB. (2013) Genomic resource development for shellfish of conservation concern Molecular Ecology Resources. doi:10.1111/1755-0998.12052

Timmins-Schiffman EB and Roberts SB. (2012) Characterization of genes involved in ceramide metabolism in the Pacific oyster Crassostrea gigas BMC Research Notes 5:502. doi:10.1186/1756-0500-5-502

Storer CG, Pascal CE, Roberts SB, Templin WD, Seeb LW and Seeb JE. (2012) Rank and Order: Evaluating the Performance of SNPs for Individual Assignment in a Non-Model Organism PLoS ONE 7(11): e49018. doi:10.1371/journal.pone.0049018

Timmins-Schiffman EB, O’Donnell M, Friedman CS, and Roberts SB. (2012) Elevated pCO2 causes developmental delay in early larval Pacific oysters, Crassostrea gigas Marine Biology. doi:10.1007/s00227-012-2055-x pdf

Burge CA, Douglas N, Conti-Jerpe I, Weil E, Roberts SB, Friedman CS and CD Harvell. (2012) Friend or foe: the association of Labyrinthulomycetes with the Caribbean sea fan, Gorgonia ventalina Diseases of Aquatic Organisms 101:1-12. doi:10.3354/dao02487

Metzger DC, Pratt P and Roberts SB. (2012) Characterizing the effects of heavy metal and Vibrio exposure on hsp70 expression in Crassostrea gigas gill tissue Journal of Shellfish Research 31(3):627-630. doi:10.2983/035.031.0305 pdf

Roberts SB, Hauser L, Seeb LW and Seeb JE (2012) Development of genomic resources for Pacific herring through targeted transcriptome pyrosequencing PLoS ONE 7(2): e30908. doi:10.1371/journal.pone.0030908

Roberts SB and Gavery MR (2012) Is there a relationship between DNA methylation and phenotypic plasticity in invertebrates? Frontiers in Physiology 2:116. doi:10.3389/fphys.2011.00116

Gavery MR* and Roberts SB. (2012) Characterizing short read sequencing for gene discovery and RNA-Seq analysis in Crassostrea gigas Comparative Biochemistry and Physiology Part D: Genomics and Proteomics 7:2 94-99. doi:10.1016/j.cbd.2011.12.003

Morera D, Roher N, Ribas L, Balasch JC, Doñate C, Callol A, Boltaña A, Roberts SB, Goetz G, Goetz FW and Mackenzie SA. (2011) RNA-Seq reveals an integrated immune response in nucleated erythrocytes PLoS ONE 6(10): e26998. doi:10.1371/journal.pone.0026998

Roberts SB, Sunila I, and Wikfors G. (2011) Immune response and mechanical stress susceptibility in diseased oysters, Crassostrea virginica Journal of Comparative Physiology B 182:1 41-48. doi:10.1007/s00360-011-0605-z

Seeb JE, Carvalho G, Hauser L, Naish K, Roberts SB and Seeb LW. (2011) Single-nucleotide polymorphism (SNP) discovery and applications of SNP genotyping in nonmodel organisms Molecular Ecology Resources 11 1–8. doi:10.1111/j.1755-0998.2010.02979.x

Seeb JE, Pascal CE, Graue ED, Seeb LW, Templin WD, Harkins T and Roberts SB. (2010) Transcriptome sequencing and high-resolution melt analysis advance single nucleotidepolymorphism discovery in duplicated salmonids Molecular Ecology Resources. doi: 10.1111/j.1755-0998.2010.02936.x

Gavery MR and Roberts SB. (2010) DNA methylation patterns provide insight into epigenetic regulation in the Pacific oyster (Crassostrea gigas) BMC Genomics 11:483. doi:10.1186/1471-2164-11-483

Mathger L, Roberts SB, and Hanlon R. (2010) Evidence for distributed light sensing in the skin of cuttlefish, Sepia officinalis Biology Letters. doi: 10.1098/rsbl.2010.0223

Goetz FW, Rosauer D, Sitar S, Goetz G, Simchick C, Roberts SB, Johnson R, Murphy C, Bronte C, and Mackenzie S. (2010) A genetic basis for the phenotypic differentiation between siscowet and lean lake trout (Salvelinus namaycush) Molecular Ecology 19 176–196.

Defaveri J*, Smolowitz R, and Roberts S (2009) Development and validation of a real-time quantitative PCR assay for the detection and quantification of Perkinsus marinus in the Eastern oyster, Crassostrea virginica Journal of Shellfish Research Vol. 28 No. 3 459-464

Roberts SB, Goetz G, White S, and Goetz F (2009) Analysis of genes isolated from plated hemocytes of the Pacific Oyster, Crassostrea gigas Marine Biotechnology 11:24-44.

Roberts SB, Gueguen Y, de Lorgeril J, and Goetz F. (2008) Rapid accumulation of an interleukin 17 homolog transcript in Crassostrea gigas hemocytes following bacterial exposure Developmental and Comparative Immunology 32, 1099-1104.

Lyons MM*, Lau Y-T, Carden WE, Ward JE, Roberts SB, Smolowitz R, Vallino J, and Allam B. (2007) Characteristics of marine aggregates in shallow-water ecosystems: Implications for disease ecology EcoHealth 4, 406–420.

Weiss E, Bennie M, Hodgins-Davis A, Roberts SB, and Gerlach G. (2007) Characterization of new SSR-EST markers in cod, Gadus morhua Molecular Ecology Notes 7: 866–867. doi: 10.1111/j.1471-8286.2007.01731.x

Hodgins-Davis A*, Roberts SB, Cowan D, Atema J, Avolio C, Defaveri J, and Gerlach G. (2007) Characterization of SSRs from the American lobster, Homarus americanus Molecular Ecology Notes 7:330-332.

Rodgers BD, Roalson EH, Weber GM, Roberts SB, Goetz FW. (2007) A Proposed Nomenclature Consensus for the Myostatin Gene Family AJP- Endocrinology and Metabolism 292(2):E371-2.

Lyons MM*, Smolowitz R, Dungan C, and Roberts SB. (2006) Development of a real-time quantitative PCR assay for the hard clam pathogen, Quahog Parasite Unknown (QPX) Diseases of Aquatic Organisms 72(1):45-52.

Biga PR, Roberts SB, Iliev DB, McCauley LA, Moon JS, Collodi P, and Goetz FW. (2005) The isolation, characterization, and expression of a novel GDF11 gene and a second myostatin form in zebrafish, Danio rerio. Comparative Biochemistry and Physiology Part B: Biochemistry and Molecular Biology 141: 218-230.

Roberts SB, Romano C, and Gerlach G. (2005) Characterization of EST derived SSRs from the bay scallop, Argopectens irradians Molecular Ecology Notes 5: 567-568.

Jentoft S, Topp N, Seeliger M, Malison JA, Barry TP, Held JA, Roberts SB, and Goetz FW. (2005) Lack of growth enhancement by exogenous growth hormone treatment in yellow perch in four separate experiments Aquaculture 250:471-479.

Hollis DM, Goetz FW, Roberts SB, and Boyd SK. (2004) Acute neurosteroid modulation and subunit isolation of the GABAa receptor in the bullfrog, Rana catesbeiana Journal of Molecular Endocrinology 32(3):921-34.

Biga PR, Cain KD, Hardy RW, Schelling GT, Overturf K, Roberts SB, Goetz FW, Ott TL. (2004) Growth hormone differentially regulates muscle myostatin1 and -2 and increases circulating cortisol in rainbow trout Oncorhynchus mykiss General and Comparative Endocrinology Vol 138(1):32-41.

Roberts SB, McCauley LAR, Devlin RH, Goetz FW. (2004) Transgenic salmon over-expressing growth hormone exhibit decreased myostatin transcript and protein expression Journal of Experimental Biology 207(Pt 21):3741-8.

Kim H-W, Mykles DL, Goetz FW, Roberts SB. (2004) Characterization of an invertebrate myostatin homologue from the bay scallop, Argopecten irradians BBA – Gene Structure and Expression 1679(2):174-9.

Roberts SB, Barry T, Malison J, Goetz FW. (2004) Production of a recombinantly-derived growth hormone antibody and the characterization of growth hormone levels in yellow perch Aquaculture Vol.232/1-4: 591-602.

Roberts SB, Goetz FW. (2003) Expressed sequence tag analysis of genes expressed in the bay scallop, Argopecten irradians Biological Bulletin 205: 227-228.

Roberts SB, Goetz FW. (2003) Myostatin protein and mRNA transcript levels in adult and developing brook trout Molecular and Cellular Endocrinology 210(1-2): 9-20.

Roberts SB, Goetz FW. (2001) Differential skeletal muscle expression of myostatin across teleost species, and the isolation of multiple myostatin isoformsFEBS Letters Vol 49:3,212-216.

Roberts SB, Langenau DM, Goetz FW. (2000) Cloning and characterization of prostaglandin endoperoxide synthase-1 and -2 from the brook trout ovary Molecular and Cellular Endocrinology 160(1-2):89-97.

Moser ML, Roberts SB. (2000) Effects of nonindigenous ictalurids and recreational electrofishing on the ictalurid community of the Cape Fear River drainage, North Carolina in Catfish 2000: Proceedings of the International Ictalurid Symposium; ER Irwin, WA Hubert, CF Rabeni, HL Schramm, Jr., and T Coon, editors. Davenport, IA. June 23-25, 1998. pp 479-485.

Roberts SB, Langenau DM, Goetz FW. (2000) Isolation through cloning of fish prostaglandin endoperoxide synthase (cyclooxygenase) in Proceedings of the 6th International Symposium on the Reproductive Physiology of Fish; B Norberg, OS Kjesbu, GL Taranger, E Andersson, and SO Stefansson, editors. Bergen, Norway. July 4-9, 1999. p 197.

Langenau DM, Goetz FW, Roberts SB. (1999) The upregulation of messenger ribonucleic acids during 17a, 20b-dihydroxy-4-pregnen-3-one-induced ovulation in the perch ovary Journal of Molecular Endocrinology 23(2):137-52.

Roberts SB, Jackson LF, King WK, Taylor RG, Grier HJ, Sullivan CV. (1999) Annual reproductive cycle of the common snook: Endocrine correlates of maturation Transactions of the American Fisheries Society 128:426-445.


PrePrints

David C. Metzger, Paul McElhany, Shallin Busch, Carolyn S. Friedman, Steven B. Roberts (preprint) Underlying impact of ocean acidification on Manila clam (Ruditapes philippinarum) larvae revealed through RNA-Seq analysis. Status: Available for Comment peer reviews: BMC, MB

David C. Metzger, Carolyn S. Friedman, Emma B. Timmins-Schiffman and Steven B. Roberts (preprint) Thermal tolerance and gene expression characterization in Manila clams (Ruditapes philippinarum) exposed to elevated carbon dioxide. Status: Available for Comment peer reviews: AB

Storer C, Goetz F, Roberts S. (preprint) Transcriptional variation in lake trout (Salvelinus namaycush) ecotypes raised under constant environmental conditions. Status: Available for Comment

Steven Roberts, Roxanna Smolowitz, Richard Karney, Mackenzie Gavery et al. (preprint) Disease tolerance in the eastern oyster. Status: Available for Comment

Roberts et al. (preprint) Hard clam gene expression analysis. Status: Available for Comment

Archived

Mackenzie Gavery and Steven Roberts (preprint) A context specific role for DNA methylation in bivalves. Status: Archived download (Revised and later accepted at Briefings in Functional Genomics 10.1093/bfgp/elt054

Emma Timmins-Schiffman, Carolyn Friedman, Steven Roberts, Sam White, Dave Metzger (preprint) Genomic resource development of shellfish of conservation concern. Status: on figshare (published – Molecular Ecology Resources)

Timmins-Schiffman E, O’Donnell M, Friedman C, and Roberts S. (preprint) Elevated pCO2 causes developmental delay in early larval Pacific oysters, Crassostrea gigas Status: on figshare (published – Marine Biology)

Lyons, Dungan, and Roberts – Thraustochytrid-like isolates from marine bivalve mollusks

Smolowitz, Schaff, DeFaveri, Roberts – Renal Trematodiasis of Largemouth Bass and Development of PCR Methods

White SJ and Roberts S. (preprint) Identification of myostatin interacting proteins using a yeast-two hybrid approach. Status: Available for Comment

Gavery MR, White SJ, Roberts S (preprint) Characterization of prostaglandin endoperoxide synthase from the Pacific oyster, Crassostrea gigas. Status: Available for Comment

Thompson R and Roberts SB (preprint) Influence of carbon dioxide-induced acidification and mechanical stress on gene expression and microbial community composition in oysters. Status: Available for Comment


Theses

Genetic and phenotypic diversity in sockeye salmon, Oncorhynchus nerka. Caroline Storer. 2012. figshare.
http://dx.doi.org/10.6084/m9.figshare.661720

Characterizing the effects of ocean acidification in larval and juvenile Manila clam, Ruditapes philippinarum, using a transcriptomic approach. David Metzger. 2012 download

 


Grants

Alleviating Regulatory Impediments to Native Shellfish Aquaculture

Source of Support: NOAA Aquaculture Program

Award Amount: $427,371

Award Period: 9/1/2012 – 8/30/2014


Sablefish Reproductive Life History and Genetics

Source of Support: NOAA / JISAO

Award Amount: $189,869

Award Period: 9/15/2012 – 6/30/2013


DNA Methylation as a Mechanism to Increase Adaptive Potential in Invertebrates

Source of Support: National Science Foundation

Award Amount: $243,090

Award Number: 1158119

Award Period: 5/1/2012 – 4/30/2014


Sablefish Broodstock Development and Functional Genomics

Source of Support: NOAA [Contract]

Award Amount: $349,407

Award Period: 9/15/2011 – 9/14/2013


Threats to Bivalve Aquaculture and Fisheries: The Influence of Emerging Diseases and Environmental Change

Source of Support: NOAA

Award Amount: $243,000

Award Period: 9/1/2009 – 2/29/2012


Evaluation of Putatively QPX-Resistant Strains of Northern Hard Clams Using Field and Genetic Studies

Award Amount: $79,503

Award Period: 3/1/2008 – 2/28/2011


 


Media


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