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Volumn 10, Issue , 2013, Pages 11-16

SNP discovery and High Resolution Melting Analysis from massive transcriptome sequencing in the California red abalone Haliotis rufescens

Author keywords

Haliotis rufescens; HRMA; Pyrosequencing; SNP

Indexed keywords

TRANSCRIPTOME;

EID: 84877674219     PISSN: 18747787     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.margen.2012.12.003     Document Type: Article
Times cited : (16)

References (34)
  • 1
    • 0030727942 scopus 로고    scopus 로고
    • Universal and rapid salt-extraction of high quality genomic DNA for PCR-based techniques
    • Aljanabi S.M., Martinez I. Universal and rapid salt-extraction of high quality genomic DNA for PCR-based techniques. Nucleic Acids Res. 1997, 22:4692-4693.
    • (1997) Nucleic Acids Res. , vol.22 , pp. 4692-4693
    • Aljanabi, S.M.1    Martinez, I.2
  • 2
    • 33751227801 scopus 로고    scopus 로고
    • A microsatellite linkage map of the blacklip abalone, Haliotis rubra
    • Baranski M., Loughnan S., Austin C.M., Robinson N. A microsatellite linkage map of the blacklip abalone, Haliotis rubra. Anim. Genet. 2006, 37:563-570.
    • (2006) Anim. Genet. , vol.37 , pp. 563-570
    • Baranski, M.1    Loughnan, S.2    Austin, C.M.3    Robinson, N.4
  • 3
    • 44049108937 scopus 로고    scopus 로고
    • Discovery and evaluation of single nucleotid polymorphisms (SNPs) for Haliotis midae: a targeted EST approach
    • Bester A.E., Roodt-Wilding R., Whitaker H.A. Discovery and evaluation of single nucleotid polymorphisms (SNPs) for Haliotis midae: a targeted EST approach. Anim. Genet. 2008, 39:321-324.
    • (2008) Anim. Genet. , vol.39 , pp. 321-324
    • Bester, A.E.1    Roodt-Wilding, R.2    Whitaker, H.A.3
  • 4
    • 79952706656 scopus 로고    scopus 로고
    • Historical isolation and hydrodynamically constrained gene flow in declining populations of the South-African abalone, Haliotis midae
    • Bester-van der Merwe A., Roodt-Wilding R., Volckaert F., D'Amato M. Historical isolation and hydrodynamically constrained gene flow in declining populations of the South-African abalone, Haliotis midae. Conserv. Genet. 2011, 12:543-555.
    • (2011) Conserv. Genet. , vol.12 , pp. 543-555
    • Bester-van der Merwe, A.1    Roodt-Wilding, R.2    Volckaert, F.3    D'Amato, M.4
  • 5
    • 84891727333 scopus 로고    scopus 로고
    • Allogyogenetic progenies produced from hybrid cross of Haliotis diversicolor female and H. discus discus male confirmed with AFLP analysis
    • Cai M., Ke C., Wang Z., Wang G., You W., Ren P. Allogyogenetic progenies produced from hybrid cross of Haliotis diversicolor female and H. discus discus male confirmed with AFLP analysis. The 7th International Abalone Symposium Pattaya, Thailand 2009.
    • (2009) The 7th International Abalone Symposium Pattaya, Thailand
    • Cai, M.1    Ke, C.2    Wang, Z.3    Wang, G.4    You, W.5    Ren, P.6
  • 6
    • 33750090093 scopus 로고    scopus 로고
    • Cloning and expression analysis of a HSP70 gene from Pacific abalone (Haliotis discus hannai)
    • Cheng P., Liu X., Zhang G., He J. Cloning and expression analysis of a HSP70 gene from Pacific abalone (Haliotis discus hannai). Fish Shellfish Immunol. 2007, 22:77-87.
    • (2007) Fish Shellfish Immunol. , vol.22 , pp. 77-87
    • Cheng, P.1    Liu, X.2    Zhang, G.3    He, J.4
  • 7
    • 24644503098 scopus 로고    scopus 로고
    • Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research
    • Conesa A., Götz S., García-Gómez J.M., Terol J., Talón M., Robles M. Blast2GO: a universal tool for annotation, visualization and analysis in functional genomics research. Bioinformatics 2005, 21:3674-3676.
    • (2005) Bioinformatics , vol.21 , pp. 3674-3676
    • Conesa, A.1    Götz, S.2    García-Gómez, J.M.3    Terol, J.4    Talón, M.5    Robles, M.6
  • 8
    • 84865281007 scopus 로고    scopus 로고
    • Rapid identification of chloroplast haplotypes using High Resolution Melting Analysis
    • Dang X.D., Kelleher C.T., Howard-Williams E., Meade C.V. Rapid identification of chloroplast haplotypes using High Resolution Melting Analysis. Mol. Ecol. Resour. 2012, 12:894-908.
    • (2012) Mol. Ecol. Resour. , vol.12 , pp. 894-908
    • Dang, X.D.1    Kelleher, C.T.2    Howard-Williams, E.3    Meade, C.V.4
  • 9
    • 84860364825 scopus 로고    scopus 로고
    • CDNA microarray analysis of disk abalone genes in gills and hemocytes after viral hemorrhagic septicemia virus (VHSV) challenge
    • De Zoysa M., Nikapitiya C., Oh C., Whang I., Shin H.J., Lee J. cDNA microarray analysis of disk abalone genes in gills and hemocytes after viral hemorrhagic septicemia virus (VHSV) challenge. Fish Shellfish Immunol. 2012, 32:1205-1215.
    • (2012) Fish Shellfish Immunol. , vol.32 , pp. 1205-1215
    • De Zoysa, M.1    Nikapitiya, C.2    Oh, C.3    Whang, I.4    Shin, H.J.5    Lee, J.6
  • 11
    • 78650059479 scopus 로고    scopus 로고
    • Application of single nucleotide polymorphisms to non-model species: a technical review
    • Garvin M.R., Saitoh K., Gharrett A.J. Application of single nucleotide polymorphisms to non-model species: a technical review. Mol. Ecol. Resour. 2010, 10:915-934.
    • (2010) Mol. Ecol. Resour. , vol.10 , pp. 915-934
    • Garvin, M.R.1    Saitoh, K.2    Gharrett, A.J.3
  • 12
    • 66349087005 scopus 로고    scopus 로고
    • Next-generation pyrosequencing of gonad transcriptome in the polyploid sturgen (Acipenser fulvescens): the relative merits of normalization and rarefaction in gene discovery
    • Hale M.C., MacCormick C.R., Jackson J.R., DeWoody J.A. Next-generation pyrosequencing of gonad transcriptome in the polyploid sturgen (Acipenser fulvescens): the relative merits of normalization and rarefaction in gene discovery. BMC Genomics 2009, 10:203.
    • (2009) BMC Genomics , vol.10 , pp. 203
    • Hale, M.C.1    MacCormick, C.R.2    Jackson, J.R.3    DeWoody, J.A.4
  • 14
    • 70149101096 scopus 로고    scopus 로고
    • CDNA cloning and expression of grp94 in the Pacific oyster Crassostrea gigas
    • Kawabe S., Yokoyama Y. cDNA cloning and expression of grp94 in the Pacific oyster Crassostrea gigas. Comp. Biochem. Physiol. B Biochem. Mol. Biol. 2009, 154:290-297.
    • (2009) Comp. Biochem. Physiol. B Biochem. Mol. Biol. , vol.154 , pp. 290-297
    • Kawabe, S.1    Yokoyama, Y.2
  • 15
    • 35348847064 scopus 로고    scopus 로고
    • SNP genotyping: technologies and biomedical applications
    • Kim S., Misra A. SNP genotyping: technologies and biomedical applications. Annu. Rev. Biomed. Eng. 2007, 9:289-320.
    • (2007) Annu. Rev. Biomed. Eng. , vol.9 , pp. 289-320
    • Kim, S.1    Misra, A.2
  • 16
    • 0038313211 scopus 로고    scopus 로고
    • Detection of single nucleotide polymorphisms
    • Kwok P.Y., Chen X. Detection of single nucleotide polymorphisms. Curr. Issues Mol. Biol. 2003, 5:43-60.
    • (2003) Curr. Issues Mol. Biol. , vol.5 , pp. 43-60
    • Kwok, P.Y.1    Chen, X.2
  • 17
    • 78449273210 scopus 로고    scopus 로고
    • Genetic variability of cultured populations of Red abalone Haliotis rufescens in Chile: an approach based on heterologous microsatellites
    • Lafarga-de la Cruz F., Aguilera-Muñoz F., del Río-Portilla M.Á., Gallardo-Escárate C. Genetic variability of cultured populations of Red abalone Haliotis rufescens in Chile: an approach based on heterologous microsatellites. J. Shellfish Res. 2010, 29:709-715.
    • (2010) J. Shellfish Res. , vol.29 , pp. 709-715
    • Lafarga-de la Cruz, F.1    Aguilera-Muñoz, F.2    del Río-Portilla, M.Á.3    Gallardo-Escárate, C.4
  • 18
    • 0003160461 scopus 로고
    • The divergence of species-specific abalone sperm lysins is promoted by positive Darwinian selection
    • Lee T., Vaquier V.D. The divergence of species-specific abalone sperm lysins is promoted by positive Darwinian selection. Biol. Bull. 1992, 182:97-104.
    • (1992) Biol. Bull. , vol.182 , pp. 97-104
    • Lee, T.1    Vaquier, V.D.2
  • 19
    • 84859471320 scopus 로고    scopus 로고
    • Characterization of ornithine decarboxylase, a potential selective breeding marker, from small abalone, Haliotis diversicolor
    • Li W., You W., Chen W., Qin J., Huang Z., Ke C., Wang Y. Characterization of ornithine decarboxylase, a potential selective breeding marker, from small abalone, Haliotis diversicolor. J. World Aquacult. Soc. 2010, 41:721-732.
    • (2010) J. World Aquacult. Soc. , vol.41 , pp. 721-732
    • Li, W.1    You, W.2    Chen, W.3    Qin, J.4    Huang, Z.5    Ke, C.6    Wang, Y.7
  • 20
    • 3042651880 scopus 로고    scopus 로고
    • Genotyping of single-nucleotide polymorphisms by high-resolution melting of small amplicons
    • Liew M., Pryor R., Palais R., Meadows C., Erali M., Lyon E., Wittwer C. Genotyping of single-nucleotide polymorphisms by high-resolution melting of small amplicons. Clin. Chem. 2004, 50:1156-1164.
    • (2004) Clin. Chem. , vol.50 , pp. 1156-1164
    • Liew, M.1    Pryor, R.2    Palais, R.3    Meadows, C.4    Erali, M.5    Lyon, E.6    Wittwer, C.7
  • 21
    • 78449293584 scopus 로고    scopus 로고
    • Genetic analysis of segregation distortion of AFLP markers in an F1 population of the Pacific abalone
    • (In chinese)
    • Liu X., Liu X., Zhang G. Genetic analysis of segregation distortion of AFLP markers in an F1 population of the Pacific abalone. Mar. Sci. 2007, 31:70-76. (In chinese).
    • (2007) Mar. Sci. , vol.31 , pp. 70-76
    • Liu, X.1    Liu, X.2    Zhang, G.3
  • 22
    • 39949083008 scopus 로고    scopus 로고
    • Ovarian follicle cells are the site of vitellogenin synthesis in the Pacific abalone Haliotis discus hannai
    • Matsumoto T., Yamano K., Kitamura M., Hara A. Ovarian follicle cells are the site of vitellogenin synthesis in the Pacific abalone Haliotis discus hannai. Comp. Biochem. Physiol. A Mol. Integr. Physiol. 2008, 149:293-298.
    • (2008) Comp. Biochem. Physiol. A Mol. Integr. Physiol. , vol.149 , pp. 293-298
    • Matsumoto, T.1    Yamano, K.2    Kitamura, M.3    Hara, A.4
  • 23
    • 0036755374 scopus 로고    scopus 로고
    • Single nucleotide polymorphism detection: allelic discrimination using TaqMan
    • McGuigan F.E.A., Ralston S.H. Single nucleotide polymorphism detection: allelic discrimination using TaqMan. Psychiatr. Genet. 2002, 12:133-136.
    • (2002) Psychiatr. Genet. , vol.12 , pp. 133-136
    • McGuigan, F.E.A.1    Ralston, S.H.2
  • 25
    • 72749105842 scopus 로고    scopus 로고
    • Sequence divergence of heat shock genes within and among 3 oncorhynchids
    • Narum S.R., Campbell N.R. Sequence divergence of heat shock genes within and among 3 oncorhynchids. J. Hered. 2010, 101:107-112.
    • (2010) J. Hered. , vol.101 , pp. 107-112
    • Narum, S.R.1    Campbell, N.R.2
  • 26
    • 77951936990 scopus 로고    scopus 로고
    • Mining transcriptome sequences towards identifying adaptive single nucleotide polymorphisms in lake whitefish species pairs (Coregonus spp. Salmonidae)
    • Renaut S., Nolte A.W., Bernatchez L. Mining transcriptome sequences towards identifying adaptive single nucleotide polymorphisms in lake whitefish species pairs (Coregonus spp. Salmonidae). Mol. Ecol. 2010, 19:115-131.
    • (2010) Mol. Ecol. , vol.19 , pp. 115-131
    • Renaut, S.1    Nolte, A.W.2    Bernatchez, L.3
  • 28
    • 79951766233 scopus 로고    scopus 로고
    • Single-nucleotide polymorphism (SNP) discovery and applications of SNP genotyping in nonmodel organisms
    • Seeb J.E., Carvalho G., Hauser L., Naish K., Roberts S., Seeb L.W. Single-nucleotide polymorphism (SNP) discovery and applications of SNP genotyping in nonmodel organisms. Mol. Ecol. Resour. 2011, 11:1-8.
    • (2011) Mol. Ecol. Resour. , vol.11 , pp. 1-8
    • Seeb, J.E.1    Carvalho, G.2    Hauser, L.3    Naish, K.4    Roberts, S.5    Seeb, L.W.6
  • 30
    • 0344737824 scopus 로고    scopus 로고
    • CDNA cloning of an alginate lyase from abalone, Haliotis discus hannai
    • Shimizu E., Ojima T., Nishita K. cDNA cloning of an alginate lyase from abalone, Haliotis discus hannai. Carbohydr. Res. 2003, 338:2841-2852.
    • (2003) Carbohydr. Res. , vol.338 , pp. 2841-2852
    • Shimizu, E.1    Ojima, T.2    Nishita, K.3
  • 31
    • 73349109122 scopus 로고    scopus 로고
    • High-resolution melting analysis (HRMA): a highly sensitive inexpensive genotyping alternative for population studies
    • Smith B.L., Lu C.P., Alvarado Bremer J.R. High-resolution melting analysis (HRMA): a highly sensitive inexpensive genotyping alternative for population studies. Mol. Ecol. Resour. 2010, 10:193-196.
    • (2010) Mol. Ecol. Resour. , vol.10 , pp. 193-196
    • Smith, B.L.1    Lu, C.P.2    Alvarado Bremer, J.R.3
  • 32
    • 77950663949 scopus 로고    scopus 로고
    • An efficient method for developing SNP markers based on EST data combined with high resolution melting (HRM) analysis
    • Ujino-Ihara T., Taguchi Y., Moriguchi Y., Tsumura Y. An efficient method for developing SNP markers based on EST data combined with high resolution melting (HRM) analysis. BMC Res. Notes 2010, 3:51.
    • (2010) BMC Res. Notes , vol.3 , pp. 51
    • Ujino-Ihara, T.1    Taguchi, Y.2    Moriguchi, Y.3    Tsumura, Y.4
  • 33
    • 84859963620 scopus 로고    scopus 로고
    • A panel of genic single nucleotide polymorphism (SNP) markers for the Pacific abalone, Haliotis discus hannai
    • Zhang Z., Zhan A., Liu X. A panel of genic single nucleotide polymorphism (SNP) markers for the Pacific abalone, Haliotis discus hannai. Conserv. Genet. Resour. 2010, 2:133-135.
    • (2010) Conserv. Genet. Resour. , vol.2 , pp. 133-135
    • Zhang, Z.1    Zhan, A.2    Liu, X.3
  • 34
    • 77949491169 scopus 로고    scopus 로고
    • A proteomics based approach to assessing the toxicity of bisphenol A and diallyl phthalate to the abalone (Haliotis diversicolor supertexta)
    • Zhou J., Cai Z.H., Li L., Gao Y.F., Hutchinson T.H. A proteomics based approach to assessing the toxicity of bisphenol A and diallyl phthalate to the abalone (Haliotis diversicolor supertexta). Chemosphere 2010, 79:595-604.
    • (2010) Chemosphere , vol.79 , pp. 595-604
    • Zhou, J.1    Cai, Z.H.2    Li, L.3    Gao, Y.F.4    Hutchinson, T.H.5


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