Development of SNP Panels as a New Tool to Assess the Genetic Diversity, Population Structure, and Parentage Analysis of the Eastern Oyster (Crassostrea virginica)

[1]  Bi Jun Li,et al.  Identifying a Major QTL Associated with Salinity Tolerance in Nile Tilapia Using QTL-Seq , 2018, Marine Biotechnology.

[2]  Lan Xu,et al.  Estimates of Heritability for Growth and Shell Color Traits and Their Genetic Correlations in the Black Shell Strain of Pacific Oyster Crassostrea gigas , 2017, Marine Biotechnology.

[3]  Jinlu Wu,et al.  QTL Mapping for Resistance to Iridovirus in Asian Seabass Using Genotyping-by-Sequencing , 2017, Marine Biotechnology.

[4]  F. Gugerli,et al.  Estimating genomic diversity and population differentiation – an empirical comparison of microsatellite and SNP variation in Arabidopsis halleri , 2017, BMC Genomics.

[5]  H. Ellegren,et al.  Determinants of genetic diversity , 2016, Nature Reviews Genetics.

[6]  E. Peatman,et al.  Discovery and validation of gene‐linked diagnostic SNP markers for assessing hybridization between Largemouth bass (Micropterus salmoides) and Florida bass (M. floridanus) , 2015, Molecular ecology resources.

[7]  E. Peatman,et al.  SNP discovery in wild and domesticated populations of blue catfish, Ictalurus furcatus, using genotyping‐by‐sequencing and subsequent SNP validation , 2014, Molecular ecology resources.

[8]  M. Vandeputte,et al.  Parentage assignment with genomic markers: a major advance for understanding and exploiting genetic variation of quantitative traits in farmed aquatic animals , 2014, Front. Genet..

[9]  S. Lapègue,et al.  Development of SNP‐genotyping arrays in two shellfish species , 2014, Molecular ecology resources.

[10]  M. Hare,et al.  Transcriptomic analysis of candidate osmoregulatory genes in the eastern oyster Crassostrea virginica , 2014, BMC Genomics.

[11]  M. Hare,et al.  Spatial genetic features of eastern oysters (Crassostrea virginica Gmelin) in the Gulf of Mexico: northward movement of a secondary contact zone , 2014, Ecology and evolution.

[12]  Nguyen Minh Thanh,et al.  A Candidate Gene Association Study for Growth Performance in an Improved Giant Freshwater Prawn (Macrobrachium rosenbergii) Culture Line , 2014, Marine Biotechnology.

[13]  Qi Li,et al.  Development, inheritance and evaluation of 55 novel single nucleotide polymorphism markers for parentage assignment in the Pacific oyster (Crassostrea gigas) , 2014, Genes & Genomics.

[14]  J. Peyre,et al.  Temporal variation in development of ecosystem services from oyster reef restoration , 2014 .

[15]  S. McWilliam,et al.  Comparison of microsatellite and SNP DNA markers for pedigree assignment in Black Tiger shrimp, Penaeus monodon , 2014 .

[16]  Koichiro Tamura,et al.  MEGA6: Molecular Evolutionary Genetics Analysis version 6.0. , 2013, Molecular biology and evolution.

[17]  G. Dharmarajan,et al.  Heterozygote deficiencies caused by a Wahlund effect: Dispelling unfounded expectations , 2013 .

[18]  S. Lapègue,et al.  A High Load of Non-neutral Amino-Acid Polymorphisms Explains High Protein Diversity Despite Moderate Effective Population Size in a Marine Bivalve With Sweepstakes Reproduction , 2013, G3: Genes | Genomes | Genetics.

[19]  Rod Peakall,et al.  GenAlEx 6.5: genetic analysis in Excel. Population genetic software for teaching and research—an update , 2012, Bioinform..

[20]  H. Hoekstra,et al.  Double Digest RADseq: An Inexpensive Method for De Novo SNP Discovery and Genotyping in Model and Non-Model Species , 2012, PloS one.

[21]  Ximing Guo,et al.  Effective population sizes of eastern oyster Crassostrea virginica (Gmelin) populations in Delaware Bay, USA , 2012 .

[22]  Robert J. Elshire,et al.  A Robust, Simple Genotyping-by-Sequencing (GBS) Approach for High Diversity Species , 2011, PloS one.

[23]  Ximing Guo,et al.  Development and validation of single nucleotide polymorphism markers in the eastern oyster Crassostrea virginica Gmelin by mining ESTs and resequencing , 2010 .

[24]  P. Gaffney,et al.  Population Genetics of the Eastern Oyster Crassostrea virginica (Gmelin, 1791) in the Gulf of Mexico , 2009 .

[25]  J. Slate,et al.  Gene mapping in the wild with SNPs: guidelines and future directions , 2009, Genetica.

[26]  P. Gaffney,et al.  GEOGRAPHIC VARIATION IN NUCLEAR GENES OF THE EASTERN OYSTER, CRASSOSTREA VIRGINICA GMELIN , 2009 .

[27]  P. Gaffney,et al.  THE CASE FOR SEQUENCING THE PACIFIC OYSTER GENOME , 2009 .

[28]  P. Etter,et al.  Rapid SNP Discovery and Genetic Mapping Using Sequenced RAD Markers , 2008, PloS one.

[29]  P. Gaffney,et al.  Assessment of Genetic Diversity of the Eastern Oyster Crassostrea virginica in Veracruz, Mexico Using Microsatellite Markers , 2008 .

[30]  F. Rousset genepop’007: a complete re‐implementation of the genepop software for Windows and Linux , 2008, Molecular ecology resources.

[31]  P. Boudry,et al.  Single Nucleotide polymorphisms and their relationship to codon usage bias in the Pacific oyster Crassostrea gigas. , 2007, Gene.

[32]  J. Graffelman,et al.  Graphical Tests for Hardy-Weinberg Equilibrium Based on the Ternary Plot , 2007, Human Heredity.

[33]  M. Posey,et al.  Ecosystem services related to oyster restoration , 2007 .

[34]  Zhanjiang Liu,et al.  Generation and analysis of ESTs from the eastern oyster, Crassostrea virginica Gmelin and identification of microsatellite and SNP markers , 2007, BMC Genomics.

[35]  S. Kalinowski,et al.  Revising how the computer program cervus accommodates genotyping error increases success in paternity assignment , 2007, Molecular ecology.

[36]  S. Lakhanpaul,et al.  Single nucleotide polymorphism (SNP)–Methods and applications in plant genetics: A review , 2006 .

[37]  W. Rodney,et al.  Comparisons of macrofaunal assemblages on restored and non-restored oyster reefs in mesohaline regions of Chesapeake Bay in Maryland , 2006 .

[38]  P. Gaffney The role of genetics in shellfish restoration , 2006 .

[39]  P. Smouse,et al.  genalex 6: genetic analysis in Excel. Population genetic software for teaching and research , 2006 .

[40]  Robert R. Christian,et al.  CONSEQUENCES OF HYPOXIA ON ESTUARINE ECOSYSTEM FUNCTION: ENERGY DIVERSION FROM CONSUMERS TO MICROBES , 2004 .

[41]  G. Luikart,et al.  SNPs in ecology, evolution and conservation , 2004 .

[42]  P. Gaffney,et al.  Mitochondrial DNA markers allow monitoring of oyster stock enhancement in the Chesapeake Bay , 2004 .

[43]  Jonathan H. Grabowski,et al.  Estimated enhancement of fish production resulting from restoring oyster reef habitat: quantitative valuation , 2003 .

[44]  J. DeWoody,et al.  Prospects for inferring pairwise relationships with single nucleotide polymorphisms , 2003, Molecular ecology.

[45]  F. Bonhomme,et al.  High variance in reproductive success of the Pacific oyster (Crassostrea gigas, Thunberg) revealed by microsatellite-based parentage analysis of multifactorial crosses , 2002 .

[46]  P. Donnelly,et al.  Inference of population structure using multilocus genotype data. , 2000, Genetics.

[47]  J. Avise,et al.  Population structure in the American oyster as inferred by nuclear gene genealogies. , 1998, Molecular biology and evolution.

[48]  J. Avise,et al.  MOLECULAR GENETIC ANALYSIS OF A STEPPED MULTILOCUS CLINE IN THE AMERICAN OYSTER (CRASSOSTREA VIRGINICA) , 1996, Evolution; international journal of organic evolution.

[49]  J. McDonald,et al.  Lack of geographic variation in anonymous nuclear polymorphisms in the American oyster, Crassostrea virginica. , 1996, Molecular biology and evolution.

[50]  Ximing Guo,et al.  All-triploid Pacific oysters (Crassostrea gigas Thunberg) produced by mating tetraploids and diploids , 1996 .

[51]  E. G. Zimmerman,et al.  Population structure of eastern oysters (Crassostrea virginica) inhabiting the Laguna Madre, Texas, and adjacent bay systems , 1994 .

[52]  J. Avise,et al.  Balancing selection at allozyme loci in oysters: implications from nuclear RFLPs. , 1992, Science.

[53]  J. Avise,et al.  A genetic discontinuity in a continuously distributed species: mitochondrial DNA in the American oyster, Crassostrea virginica. , 1990, Genetics.

[54]  N. Buroker Population genetics of the American oyster Crassostrea virginica along the Atlantic coast and the Gulf of Mexico , 1983 .

[55]  M. Hare,et al.  Reef-Specific Patterns of Gene Expression Plasticity in Eastern Oysters (Crassostrea virginica). , 2016, The Journal of heredity.

[56]  Ximing Guo,et al.  A 16-microsatellite multiplex assay for parentage assignment in the eastern oyster (Crassostrea virginica Gmelin) , 2010 .

[57]  W. Köhler,et al.  Population Genetics: Aspects of Biodiversity , 2003 .

[58]  M. Posey,et al.  Oyster Reef Restoration: Convergence Of Harvest And Conservation Strategies , 2000 .

[59]  R. Chapman,et al.  Intraspecific variation in the 16S ribosomal gene of Crassostrea virginica. , 1997 .

[60]  C. Cunningham,et al.  Developing model systems for molecular biogeography: Vicariance and interchange in marine invertebrates , 1994 .